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POLE

gene
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Also known as POLE1

Summary

POLE (DNA polymerase epsilon, catalytic subunit, HGNC:9177) is a protein-coding gene on chromosome 12q24.33, encoding DNA polymerase epsilon catalytic subunit A (Q07864). Catalytic component of the DNA polymerase epsilon complex. In precision oncology, POLE Mutation confers sensitivity to Pembrolizumab in Glioblastoma (CIViC Level C); 3 further curated variant–drug associations are listed below. It is a common-essential gene (DepMap: required in 99.8% of cancer cell lines).

This gene encodes the catalytic subunit of DNA polymerase epsilon. The enzyme is involved in DNA repair and chromosomal DNA replication. Mutations in this gene have been associated with colorectal cancer 12 and facial dysmorphism, immunodeficiency, livedo, and short stature.

Source: NCBI Gene 5426 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): POLE-related polyposis and colorectal cancer syndrome (Definitive, ClinGen) — +5 more curated relationships
  • GWAS associations: 3
  • Clinical variants (ClinVar): 11,128 total — 354 pathogenic, 128 likely-pathogenic (top 1% of genes corpus-wide)
  • GTEx eGene: eQTL in 36 tissues, sQTL in 33 (q < 0.05)
  • Phenotypes (HPO): 116
  • Precision-oncology evidence (CIViC): 4 curated variant–drug associations
  • Cancer driver (intOGen): activating (oncogene-like) across 2 cancer types (inferred from mutation patterns)
  • Cancer dependency (DepMap): dependent in 99.8% of screened cell lines (common-essential)
  • Dosage sensitivity (ClinGen): haploinsufficiency little evidence, triplosensitivity no evidence
  • Constraint (gnomAD): pLI 0.00 (LoF-tolerant), LOEUF 0.75 (unconstrained)
  • MANE Select transcript: NM_006231
  • Interaction hub: 2,173 STRING partners (top 6% of genes corpus-wide)

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:9177
Approved symbolPOLE
NameDNA polymerase epsilon, catalytic subunit
Location12q24.33
Locus typegene with protein product
StatusApproved
AliasesPOLE1
Ensembl geneENSG00000177084
Ensembl biotypeprotein_coding
OMIM174762
Entrez5426

Gene structure

Transcript identifiers

Ensembl transcripts: 26 — 10 retained_intron, 10 nonsense_mediated_decay, 4 protein_coding, 2 protein_coding_CDS_not_defined

MANE Select: ENST00000320574

Transcript support level (Ensembl TSL; 1 = fully mRNA-supported): TSL 1: 3, TSL 2: 3, TSL 3: 5, TSL 4: 3, TSL 5: 3

ENST00000320574, ENST00000416953, ENST00000434528, ENST00000441786, ENST00000503265, ENST00000534922, ENST00000535270, ENST00000537064, ENST00000538196, ENST00000539215, ENST00000539357, ENST00000539618, ENST00000540987, ENST00000541627, ENST00000544414, ENST00000544870, ENST00000545015, ENST00000672002, ENST00000672742, ENST00000699981, ENST00000699982, ENST00000699983, ENST00000699984, ENST00000699985, ENST00000937600, ENST00001141704

RefSeq mRNA: 1 — MANE Select: NM_006231 NM_006231

CCDS: CCDS9278

Canonical transcript exons

ENST00000320574 — 49 exons

ExonStartEnd
ENSE00001221880132676094132676204
ENSE00001221886132676546132676653
ENSE00001221895132677363132677443
ENSE00001221904132677578132677719
ENSE00001221910132679497132679651
ENSE00001221917132679954132680046
ENSE00001221926132680178132680222
ENSE00001221932132680607132680687
ENSE00002699740132687254132687342
ENSE00003469256132642820132642996
ENSE00003471189132681138132681279
ENSE00003474748132643407132643560
ENSE00003481557132623762132624810
ENSE00003484451132632315132632508
ENSE00003493093132642506132642729
ENSE00003498236132675735132675820
ENSE00003501253132667503132667648
ENSE00003505045132638014132638139
ENSE00003505152132643837132643977
ENSE00003530501132657136132657258
ENSE00003531158132643224132643330
ENSE00003538362132668635132668737
ENSE00003540408132664370132664462
ENSE00003548640132641647132641851
ENSE00003555146132624905132624994
ENSE00003574090132673164132673277
ENSE00003581276132672627132672839
ENSE00003582134132665302132665450
ENSE00003596682132639125132639298
ENSE00003598809132660969132661164
ENSE00003607611132673575132673707
ENSE00003608285132657349132657429
ENSE00003612691132642177132642397
ENSE00003621968132675398132675517
ENSE00003627930132625645132625770
ENSE00003637825132664004132664148
ENSE00003639152132661527132661684
ENSE00003639545132649306132649515
ENSE00003646829132668356132668502
ENSE00003652503132668811132668939
ENSE00003654243132659295132659509
ENSE00003655346132632664132632795
ENSE00003666262132626117132626317
ENSE00003673423132634186132634378
ENSE00003674568132635892132636024
ENSE00003684194132648929132649072
ENSE00003691443132672215132672322
ENSE00003726606132657868132657970
ENSE00003730711132649677132649889

Expression profiles

Bgee: expression breadth ubiquitous, 221 present calls, max score 94.93.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 23.9565 / max 472.2981, expressed in 1770 samples.

Highest expression (Bgee): hemisphere of cerebellum, testis, cerebellar hemisphere, cerebellar cortex, sural nerve.

Genetic regulation across tissues (GTEx eQTL / sQTL)

POLE is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 36 tissues and its splicing (sQTL) in 33 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

showing 20 of 69 significant tissue × QTL associations:

TissueQTLq-valueSlopeLead variant
Brain Cerebellumeqtl1.2e-97-1.1912:132622323:T:C
Brain Cerebellar Hemisphereeqtl5.2e-95-1.0812:132622323:T:C
Muscle Skeletalsqtl2.0e-60+0.9112:132658746:T:G
Muscle Skeletaleqtl3.9e-53-0.3912:132659203:A:G
Brain Cerebellumsqtl7.4e-53+1.4712:132622323:T:C
Skin Sun Exposed Lower legsqtl8.5e-50-0.9612:132676210:C:G
Testissqtl1.1e-49+1.3312:132636864:C:T
Brain Frontal Cortex BA9eqtl1.3e-48+0.8312:132682939:C:T
Brain Nucleus accumbens basal gangliaeqtl4.7e-48-0.7912:132629721:A:C
Skin Not Sun Exposed Suprapubicsqtl3.9e-46-1.0312:132660160:C:T
Adipose Subcutaneoussqtl2.4e-44-0.8812:132629709:A:G
Brain Cortexeqtl1.2e-41-0.8312:132667231:C:T
Brain Cerebellar Hemispheresqtl1.1e-35-1.4812:132653619:C:T
Cells EBV-transformed lymphocytessqtl3.8e-32-1.0812:132636864:C:T
Nerve Tibialeqtl7.1e-31-0.2812:132686336:C:G
Skin Not Sun Exposed Suprapubiceqtl1.8e-29+0.2612:132636864:C:T
Brain Caudate basal gangliaeqtl1.1e-27-0.6212:132667231:C:T
Nerve Tibialsqtl3.7e-27+0.7812:132676210:C:G
Artery Tibialsqtl2.8e-25+0.7712:132676210:C:G
Cells Cultured fibroblastssqtl7.8e-25+0.8712:132685415:C:T

FANTOM5 promoters

3 alternative TSS:

Promoter IDTPM avgSamples expressed
13422323.41211763
1342210.2800122
1342240.2644103

Top tissues by expression

showing 100 of 267 tissues by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
right hemisphere of cerebellumUBERON:001489094.93gold quality
right testisUBERON:000453494.74gold quality
cerebellar hemisphereUBERON:000224594.70gold quality
left testisUBERON:000453394.63gold quality
cerebellar cortexUBERON:000212994.46gold quality
sural nerveUBERON:001548893.00gold quality
cerebellumUBERON:000203792.23gold quality
ventricular zoneUBERON:000305391.78gold quality
spleenUBERON:000210691.10gold quality
testisUBERON:000047391.02gold quality
endometrium epitheliumUBERON:000481190.13gold quality
skin of abdomenUBERON:000141689.89gold quality
skin of legUBERON:000151189.80gold quality
ganglionic eminenceUBERON:000402389.56gold quality
right lobe of liverUBERON:000111489.49gold quality
granulocyteCL:000009488.98gold quality
mucosa of transverse colonUBERON:000499188.29gold quality
lower esophagus mucosaUBERON:003583487.92gold quality
mucosa of stomachUBERON:000119987.83gold quality
body of stomachUBERON:000116187.69gold quality
small intestine Peyer’s patchUBERON:000345487.18gold quality
cortical plateUBERON:000534387.07gold quality
transverse colonUBERON:000115787.02gold quality
zone of skinUBERON:000001486.82gold quality
bone marrow cellCL:000209286.61gold quality
stomachUBERON:000094586.47gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099186.20gold quality
esophagogastric junction muscularis propriaUBERON:003584186.17gold quality
left ovaryUBERON:000211986.09gold quality
lower esophagus muscularis layerUBERON:003583385.83gold quality
lower esophagusUBERON:001347385.81gold quality
right ovaryUBERON:000211885.49gold quality
esophagusUBERON:000104385.35gold quality
small intestineUBERON:000210885.31gold quality
esophagus mucosaUBERON:000246985.20gold quality
popliteal arteryUBERON:000225085.16gold quality
tibial arteryUBERON:000761085.16gold quality
muscle layer of sigmoid colonUBERON:003580585.09gold quality
gastrocnemiusUBERON:000138885.08gold quality
left uterine tubeUBERON:000130385.04gold quality
muscle of legUBERON:000138385.00gold quality
ectocervixUBERON:001224985.00gold quality
colonic epitheliumUBERON:000039784.96gold quality
apex of heartUBERON:000209884.79gold quality
calcaneal tendonUBERON:000370184.78gold quality
aortaUBERON:000094784.77gold quality
paraflocculusUBERON:000535184.75silver quality
tibial nerveUBERON:000132384.70gold quality
body of pancreasUBERON:000115084.66gold quality
body of uterusUBERON:000985384.54gold quality
thoracic aortaUBERON:000151584.51gold quality
ascending aortaUBERON:000149684.49gold quality
minor salivary glandUBERON:000183084.40gold quality
embryoUBERON:000092284.15gold quality
descending thoracic aortaUBERON:000234583.95gold quality
rectumUBERON:000105283.44gold quality
upper lobe of left lungUBERON:000895283.42gold quality
colonUBERON:000115583.23gold quality
intestineUBERON:000016083.22gold quality
metanephros cortexUBERON:001053383.06gold quality
bone marrowUBERON:000237182.98gold quality
endocervixUBERON:000045882.96gold quality
left coronary arteryUBERON:000162682.68gold quality
fundus of stomachUBERON:000116082.61gold quality
large intestineUBERON:000005982.52gold quality
upper lobe of lungUBERON:000894882.52gold quality
omental fat padUBERON:001041482.50gold quality
peritoneumUBERON:000235882.45gold quality
right lungUBERON:000216782.42gold quality
lymph nodeUBERON:000002982.40gold quality
subcutaneous adipose tissueUBERON:000219082.40gold quality
hindlimb stylopod muscleUBERON:000425282.34gold quality
sigmoid colonUBERON:000115982.30gold quality
right uterine tubeUBERON:000130282.29gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047382.24gold quality
mouth mucosaUBERON:000372982.10gold quality
stromal cell of endometriumCL:000225582.01gold quality
right atrium auricular regionUBERON:000663181.98gold quality
vaginaUBERON:000099681.91gold quality
saliva-secreting glandUBERON:000104481.85gold quality
liverUBERON:000210781.85gold quality
ovaryUBERON:000099281.78gold quality
right frontal lobeUBERON:000281081.78gold quality
adipose tissue of abdominal regionUBERON:000780881.78gold quality
coronary arteryUBERON:000162181.64gold quality
right lobe of thyroid glandUBERON:000111981.43gold quality
monocyteCL:000057681.38gold quality
left lobe of thyroid glandUBERON:000112081.30gold quality
leukocyteCL:000073881.24gold quality
tendonUBERON:000004381.17gold quality
frontal poleUBERON:000279581.08gold quality
mononuclear cellCL:000084281.03gold quality
cardiac atriumUBERON:000208180.57gold quality
tonsilUBERON:000237280.42gold quality
muscle organUBERON:000163080.40gold quality
thyroid glandUBERON:000204680.22gold quality
anatomical systemUBERON:000046780.12gold quality
prostate glandUBERON:000236780.11gold quality
pancreasUBERON:000126480.07gold quality
thymusUBERON:000237080.00gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes6.26

HPA expression

RNA tissue specificity: Tissue enhanced

showing 60 of 76 HPA tissues / cells by nTPM:

Tissue / cellAxisnTPM
Bone marrowtissue20.8
Thymustissue14.1
Skin 1tissue10.7
Testistissue9.3
Spleentissue8.4
Small intestinetissue6.3
Tonsiltissue6.3
Lymph nodetissue6.2
Duodenumtissue5.9
Rectumtissue5.6
Appendixtissue5.5
Stomach 1tissue4.6
Livertissue4.5
Salivary glandtissue4.4
Colontissue4.4
Placentatissue4.4
Skeletal muscletissue4.0
Choroid plexustissue3.8
Ovarytissue3.7
Vaginatissue3.7
Pancreastissue3.6
Hippocampustissue3.5
Esophagustissue3.4
Endometrium 1tissue3.4
Smooth muscletissue3.3
Prostatetissue3.3
Breasttissue3.0
Seminal vesicletissue3.0
Postcentral gyrustissue3.0
Gallbladdertissue2.9
Lungtissue2.8
Fallopian tubetissue2.8
Adipose tissuetissue2.6
Tonguetissue2.6
Heart muscletissue2.5
Parathyroid glandtissue2.3
Cervixtissue2.2
Nucleus accumbenstissue2.2
Urinary bladdertissue2.1
Locus coeruleustissue2.1
Epididymistissue2.0
Retinatissue1.9
Thyroid glandtissue1.7
Pituitary glandtissue1.5
Adrenal glandtissue1.4
Kidneytissue1.3
Basal gangliatissue0.8
Cerebellumtissue0.8
Amygdalatissue0.7
Hippocampal formationtissue0.7
Olfactory bulbtissue0.7
Cerebral cortextissue0.6
Putamentissue0.6
Spinal cordtissue0.6
Corpus callosumtissue0.6
Entorhinal cortextissue0.6
Ventral forebraintissue0.6
Retrosplenial and cingulate cortextissue0.6
Retrosplenial cortextissue0.6
Temporal cortextissue0.6

Brain sub-regions (HPA Brain Atlas): detected in 189; highest nTPM — Vermis (9.4), Flocculonodular lobe (8.6), Cerebellar cortex (8.1), Hippocampus, CA3 (5.5), Dentate gyrus (4.8).

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

Targeting POLE by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific).

showing 30 of 45 miRNAs:

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3689D100.0066.141181
HSA-MIR-6851-5P100.0065.631294
HSA-MIR-548AJ-3P99.9673.385345
HSA-MIR-548X-3P99.9673.385345
HSA-MIR-548J-3P99.9472.614881
HSA-MIR-548AE-3P99.9372.664867
HSA-MIR-548AH-3P99.9372.544872
HSA-MIR-548AM-3P99.9372.544872
HSA-MIR-548AQ-3P99.9372.664867
HSA-MIR-345-3P99.8970.231421
HSA-MIR-6783-3P99.8967.922059
HSA-MIR-1343-3P99.8966.781815
HSA-MIR-548D-3P99.8770.674362
HSA-MIR-548BB-3P99.8670.584354
HSA-MIR-548AC99.8470.774351
HSA-MIR-548H-3P99.8470.804349
HSA-MIR-548Z99.8470.804349
HSA-MIR-397599.6265.97697
HSA-MIR-1207-5P99.4969.112983
HSA-MIR-132499.4666.571302
HSA-MIR-20A-3P99.4469.101575
HSA-MIR-4762-3P99.4369.722363
HSA-MIR-431699.3765.751360
HSA-MIR-6828-5P99.3169.211433
HSA-MIR-4667-3P99.2665.451608
HSA-MIR-6837-5P99.2565.471632
HSA-MIR-4685-5P99.2565.991563
HSA-MIR-6878-3P99.2464.23920
HSA-MIR-6852-5P99.1766.692073
HSA-MIR-485-5P99.1064.781889

Functional genomics

gnomAD constraint: pLI 2.74e-38, LOEUF 0.75, missense Z 2.67 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD)

ENST00000320574 splits into 5 regions with different missense tolerance; 0 are missense-constrained. Missense variants in a constrained region (low observed/expected) are more likely to be pathogenic. gnomAD

Region (GRCh38)Missense obs / expo/eConstrained
12:132,624,700–132,661,0151551 / 1686.10.92no
12:132,661,016–132,661,13919 / 51.50.37no
12:132,661,140–132,664,101101 / 115.40.87no
12:132,664,102–132,664,43821 / 51.90.40no
12:132,664,439–132,687,3151011 / 1111.70.91no
ClinGen dosage: haploinsufficiency 1 (little evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
DepMap (CRISPR cell-line fitness): dependent in 99.8% of screened cell lines, common-essential.

Most-dependent cell lines (DepMap gene-effect, lower = stronger; ≤ −0.5 shown): LOU-NH91 (-2.903), KP-N-YN (-2.867), RERF-GC-1B (-2.713), EFO-21 (-2.572), DB (-2.561), BT-12 (-2.53), L-363 (-2.512), HEL (-2.479), Hs 294T (-2.397), HCC1937 (-2.396), G-292, clone A141B1 (-2.343), NCI-H747 (-2.341), CCF-STTG1 (-2.313), COV362 (-2.311), KMRC-20 (-2.298).

Literature-anchored findings (GeneRIF, showing 40)

  • It is hypothesized from these observations that pol epsilon and PCNA have separate but associated functions early in S phase and that pol epsilon participates with PCNA in DNA replication late in S phase. (PMID:11741962)
  • SNPs associated with prognosis of lung cancer was mapped to POLE. (PMID:17855454)
  • An AATT deletion in the 55 kDa small subunit DNA sequence of DNA polymerase epsilon is associated with breast cancer (PMID:19129559)
  • Statistical analysis indicated that six genes, NFATC2, SCP2, CACNA1C, TCRA, POLE, and FAM3D, were associated with narcolepsy. (PMID:20677014)
  • Stable interaction between the human proliferating cell nuclear antigen loader complex Ctf18-replication factor C (RFC) and DNA polymerase {epsilon} is mediated by the cohesion-specific subunits, Ctf18, Dcc1, and Ctf8. (PMID:20826785)
  • Mutation in the POLE gene that encodes p261 catalytic subunit of pol epsilon is the first found in human cells. (PMID:21157497)
  • In vitro gap-directed translesion DNA synthesis of an abasic site involving human DNA polymerases epsilon, lambda, and beta. (PMID:21757740)
  • Pol switches at replication-blocking lesions occur by the exchange of the Pol delta and Pol zeta catalytic subunits on a preassembled complex of accessory proteins retained on DNA during translesion DNA synthesis. (PMID:22465957)
  • Data show that using a 200-nt primed circular DNA substrate, the combined action of DNA polymerase epsilon and the Cdc45/Mcm2-7/GINS (CMG complex) leads to the formation of products >10 kb in length. (PMID:22474384)
  • Pol epsilon and Pol alpha/delta seem to pursue their functions at least in part independently in late S phase (PMID:22887995)
  • Pol epsilon is a likely source of ribonucleotides in human genomic DNA. (PMID:23093410)
  • observed impairment in proliferation and G1- to S-phase progression in patients’ T lymphocytes. Polepsilon1 depletion also impaired G1- to S-phase progression in B lymphocytes, chondrocytes, and osteoblasts. (PMID:23230001)
  • Germline mutations affecting the proofreading domains of POLE and POLD1 predispose to colorectal adenomas and carcinomas. (PMID:23263490)
  • Germline and somatic polymerase epsilon and delta mutations define a new class of hypermutated colorectal and endometrial cancers. (PMID:23447401)
  • POLE and POLD1 mutations are associated with endometrial cancer. (PMID:23528559)
  • To catalyze leading-strand synthesis in vivo, Polepsilon likely interacts with its three smaller subunits and additional replication factors in order to assemble a replication complex and significantly enhance its polymerization processivity. (PMID:24020356)
  • Mutant Pol epsilon causes replication errors in vivo. In colorectal patients, the single allele mutations are microsatellite stable with a large increase in base pair substitutions, consistent with requirement of additional factors for tumor development. (PMID:24051051)
  • The POLE1 p.S297F mutation was frequent in Chinese ovarian endometrioid carcinoma. (PMID:24472300)
  • POLE and POLD1 mutations explain a fraction of familial CRC and polyposis. Sequencing the proofreading domains of POLE and POLD1 should be considered in routine genetic diagnostics. (PMID:24501277)
  • Germline mutations in the proofreading domains of 2 DNA polymerases (POLE and POLD1) have been associated with a dominantly inherited, highly penetrant syndrome of oligo adenomatous polyposis and early-age-of-diagnosis colorectal and endometrial cancer. (PMID:24509466)
  • Heterozygosity for the variant allele caused a strong mutator effect comparable with that of complete mismatch repair deficiency, providing an explanation for why loss of heterozygosity is not required for the development of Polepsilon-mutant human tumors. (PMID:24525744)
  • A new amino-acid substitution in POLE was identified resulting in a predisposition to a broad spectrum of tumours in addition to colorectal cancers. (PMID:24788313)
  • POLE exonuclease domain mutations occur in a subset of grade 3 endometrioid carcinomas and are associated with good clinical outcome. (PMID:24844595)
  • POLE mutations have been found in other tumor types, though at lower frequency, suggesting roles in tumorigenesis more broadly in different tissue types. [Review] (PMID:24861832)
  • Hearing ability was strongly associated with DNA methylation levels in the promoter regions of several genes, including TCF25, FGFR1, and POLE. (PMID:25184702)
  • Somatic POLE exonuclease domain mutations are common in endometrioid endometrial cancer, are observed with equal frequency in tumors with microsatellite stability and those with microsatellite instability, and are not associated with survival. (PMID:25224212)
  • Data indicate that exonuclease domain of DNA polymerase epsilon (POLE-exo*) mutants generate a unique pattern of replication errors. (PMID:25228659)
  • None of the 1188 patients carried the POLD1 p.(Ser478Asn) variant. POLE germline variant carriers are also associated with a microsatellite instable colorectal cancer (PMID:25370038)
  • the recognition of ultramutated endometrial carcinomas with POLE exonuclease domain mutation is important given their favorable outcome (PMID:25394778)
  • The 3’–>5’ exonuclease activity of hPol further enhances polymerization fidelity by an unprecedented 3.5 x 10(2) to 1.2 x 10(4)-fold. (PMID:25414327)
  • Data indicate that the polymerase (DNA directed), epsilon protein (POLE) mutation c.1270C>G;p.Leu424Val was detected in 1.5% (4/266) of all patients, 4% (3/77) of all familial cases and 7% (2/30) of familial polyposis cases. (PMID:25529843)
  • The kinetic parameters of the truncated catalytic subunit and holoenzyme of human DNA polymerase varepsilon are compared. (PMID:25684708)
  • Identified a genomically, histologically, and clinically distinct subgroup of high-grade gliomas that harbored somatic POLE mutations and carried an improved prognosis. (PMID:25740784)
  • A novel c.1373A>T (p.Tyr458Phe)POLE mutation associated with cancers of colon, pancreas, ovaries and small intestine. (PMID:25860647)
  • POLE proofreading-mutant endometrial cancers are characterized by a robust intratumoral T-cell response, which correlates with, and may be caused by an enrichment of antigenic neopeptides (PMID:25878334)
  • POLE ultra-mutated-tumors are significantly more immunogenic when compared to POLE (-) tumors, in particular to the helper arm of the immune system. (PMID:25931171)
  • study of complete exonuclease domains of POLE and POLD1 in 529 families characterized by presence of familial or early-onset mismatch repair proficient colorectal cancer, and/or APC-negative and MUTYH-negative polyposis; results widen the phenotypic spectrum of the POLE/POLD1-associated syndrome and identify novel pathogenic variants (PMID:26133394)
  • Missense point mutations in POLE gene is associated with Ovarian Endometrioid Carcinoma. (PMID:26166557)
  • Results show that that mutated POLE 1 are associated with high neoantigen loads and may be excellent candidates for PD-1-targeted immunotherapies. (PMID:26181000)
  • POLE mutations are associated with cutaneous melanoma. (PMID:26251183)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_reriopoleENSDARG00000058533
mus_musculusPoleENSMUSG00000007080
rattus_norvegicusPoleENSRNOG00000037449
drosophila_melanogasterPolE1FBGN0264326
caenorhabditis_eleganspole-1WBGENE00009368

Mouse-model phenotypes

Observed phenotypes of the mouse ortholog (MGI:1196391) from MGI (Alliance of Genome Resources) — knockout/mutant phenotypes, ranked by annotation count. 12 distinct phenotype terms.

Mouse phenotype (MP)Records
enlarged spleen1
increased tumor incidence1
premature death1
increased intestinal adenoma incidence1
increased intestinal adenocarcinoma incidence1
increased lung tumor incidence1
increased small intestine adenocarcinoma incidence1
increased colon adenocarcinoma incidence1
increased histiocytic sarcoma incidence1
increased adenoma incidence1
embryonic lethality between implantation and placentation, complete penetrance1
increased lymphoma incidence1

Additional cross-species homologs

Sequence homologs in species beyond Ensembl Compara’s model organisms, by Diamond local protein alignment (% sequence identity; best hit per species). Lower-identity rows are more distant homologs. The matched accessions’ gene symbols aren’t in biobtree yet, so each row shows the UniProt accession.

OrganismUniProtIdentityMethod
Cryptococcus deneoformans JEC21P0CN26100.0%Diamond
Cryptococcus deneoformans B-3501AP0CN27100.0%Diamond
Aspergillus nidulans FGSC A4O9384585.5%Diamond
Aspergillus fumigatus Af293Q4WXH885.5%Diamond
Arabidopsis thalianaF4HW0485.2%Diamond
Saccharomyces cerevisiae S288CP2195168.5%Diamond
Nakaseomyces glabratus CBS 138Q6FNY768.4%Diamond
Kluyveromyces lactis NRRL Y-1140Q6CUS766.2%Diamond
Eremothecium gossypii ATCC 10895Q752B866.0%Diamond
Debaryomyces hansenii CBS767Q6BNG258.4%Diamond
Mycosarcoma maydisQ4PFV555.8%Diamond
Schizosaccharomyces pombe 972h-P8715448.2%Diamond
Yarrowia lipolytica CLIB122Q6C4J042.6%Diamond
Dictyostelium discoideumQ54RD442.2%Diamond

Genomic neighbors (locus context)

Genes flanking this one on the chromosome (NCBI/Entrez gene neighborhood). Positional context only — some neighbors share regulatory elements (bidirectional promoters, antisense/overlapping transcripts), but chromosomal adjacency is not itself a functional relationship (see Interactions for that).

SymbolTypeEntrez
P2RX2protein-coding22953
PGAM5protein-coding192111
PXMP2protein-coding5827
LRCOL1protein-coding100507055
ANKLE2protein-coding23141

Protein

Protein identifiers

DNA polymerase epsilon catalytic subunit A — Q07864 (reviewed: Q07864)

Alternative names: 3’-5’ exodeoxyribonuclease, DNA polymerase II subunit A

All UniProt accessions (9): A0A087WW42, A0A087WX51, A0A5F9ZHD6, A0A5F9ZI42, A0A8V8TQH1, A0A8V8TQW1, F5H1D6, F5H7E4, Q07864

UniProt curated annotations — full annotation on UniProt →

Function. Catalytic component of the DNA polymerase epsilon complex. Participates in chromosomal DNA replication. Required during synthesis of the leading DNA strands at the replication fork, binds at/or near replication origins and moves along DNA with the replication fork. Has 3’-5’ proofreading exonuclease activity that corrects errors arising during DNA replication. Involved in DNA synthesis during DNA repair. Along with DNA polymerase POLD1 and DNA polymerase POLK, has a role in excision repair (NER) synthesis following UV irradiation.

Subunit / interactions. Component of the DNA polymerase epsilon complex consisting of four subunits: the catalytic subunit POLE and the accessory subunits POLE2, POLE3 and POLE4. Interacts with RAD17 and TOPBP1.

Subcellular location. Nucleus.

Disease relevance. Colorectal cancer 12 (CRCS12) [MIM:615083] A complex disease characterized by malignant lesions arising from the inner wall of the large intestine (the colon) and the rectum. Genetic alterations are often associated with progression from premalignant lesion (adenoma) to invasive adenocarcinoma. Risk factors for cancer of the colon and rectum include colon polyps, long-standing ulcerative colitis, and genetic family history. CRCS12 is characterized by a high-penetrance predisposition to the development of colorectal adenomas and carcinomas, with a variable tendency to develop multiple and large tumors. Onset is usually before age 40 years. The histologic features of the tumors are unremarkable. Disease susceptibility is associated with variants affecting the gene represented in this entry. Facial dysmorphism, immunodeficiency, livedo, and short stature (FILS) [MIM:615139] A syndrome characterized by mild facial dysmorphism, mainly malar hypoplasia, livedo on the skin since birth, and immunodeficiency resulting in recurrent infections. Growth impairment is observed during early childhood and results in variable short stature in adulthood. The disease is caused by variants affecting the gene represented in this entry. Intrauterine growth retardation, metaphyseal dysplasia, adrenal hypoplasia congenita, genital anomalies, and immunodeficiency (IMAGEI) [MIM:618336] An autosomal recessive disorder characterized by intrauterine growth retardation, postnatal growth failure, metaphyseal dysplasia, adrenal hypoplasia congenita, growth hormone deficiency, genital anomalies, and immunodeficiency resulting in increased infections. The disease is caused by variants affecting the gene represented in this entry.

Domain organisation. The DNA polymerase activity domain resides in the N-terminal half of the protein, while the C-terminus is necessary for maintenance of the complex. The CysA-type zinc finger is required for PCNA-binding. The CysB motif binds 1 4Fe-4S cluster and is required for the formation of polymerase complexes.

Similarity. Belongs to the DNA polymerase type-B family.

RefSeq proteins (1): NP_006222* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR006133DNA-dir_DNA_pol_B_exonucDomain
IPR006172DNA-dir_DNA_pol_BFamily
IPR012337RNaseH-like_sfHomologous_superfamily
IPR013697DNA_pol_e_suA_CDomain
IPR023211DNA_pol_palm_dom_sfHomologous_superfamily
IPR029703POL2Family
IPR036397RNaseH_sfHomologous_superfamily
IPR042087DNA_pol_B_thumbHomologous_superfamily
IPR043502DNA/RNA_pol_sfHomologous_superfamily
IPR054475Znf-DPOEDomain
IPR055191POL2_thumbDomain

Pfam: PF03104, PF08490, PF22634, PF22912, PF23250

Enzyme classification (BRENDA)

  • EC 2.7.7.7 — DNA-directed DNA polymerase (BRENDA: 139 organisms, 372 substrates, 325 inhibitors, 281 Km, 239 kcat entries)

Substrate kinetics (BRENDA)

52 substrates with measured Km, best-characterized 15. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
DATP0.0003–3.252
DCTP0.0001–2.546
DTTP0.0003–47.446
DGTP0.0002–2.529
DEOXYNUCLEOSIDE TRIPHOSPHATE0.0012–0.6412
DNAN—7
7-DEAZA-2’-DEOXYADENOSINE 5’-TRIPHOSPHATE0.0011–0.3445
N1-METHYL-2’-DEOXYADENOSINE 5’-TRIPHOSPHATE0.223–0.4035
2-AMINOPURINE-2’-DEOXY-D-RIBOSE 5’-TRIPHOSPHATE0.006–0.01442
2-THIO-DCTP0.067–0.982
5-METHYL-DCTP0.013–1.222
DAMP:DG1.153–1.422
DCMP:DG—2
DGMP:DG0.263–0.35112
DTMP:DG1.26–1.432

Catalyzed reactions (Rhea)

  • DNA(n) + a 2’-deoxyribonucleoside 5’-triphosphate = DNA(n+1) + diphosphate (RHEA:22508)

UniProt features (249 total): strand 86, helix 81, sequence variant 42, turn 20, binding site 8, modified residue 4, region of interest 2, compositionally biased region 2, chain 1, zinc finger region 1, short sequence motif 1, sequence conflict 1

Structure

Experimental structures (PDB)

18 structures by resolution:

PDBTitleMethodResolution (Å)
5VBNCrystal Structure of human DNA polymerase epsilon B-subunit in complex with C-terminal …X-RAY DIFFRACTION2.35
7PLOH. sapiens replisome-CUL2/LRR1 complexELECTRON MICROSCOPY2.8
9B8THuman polymerase epsilon bound to PCNA and DNA in the nucleotide bound stateELECTRON MICROSCOPY2.95
9NE6Human polymerase epsilon bound to PCNA and DNA with an in-situ-generated mismatch in the …ELECTRON MICROSCOPY3.11
7PFOCore human replisomeELECTRON MICROSCOPY3.2
9F6IHuman DNA Polymerase epsilon bound to T-C mismatched DNA (Post-Insertion state)ELECTRON MICROSCOPY3.3
9SRIHuman DNA polymerase epsilon bound to DNA blunt endELECTRON MICROSCOPY3.3
9NE7Human polymerase epsilon bound to PCNA and DNA with an in-situ-generated mismatch in the …ELECTRON MICROSCOPY3.53
9F6DHuman DNA polymerase epsilon bound to DNA and PCNA (open conformation)ELECTRON MICROSCOPY3.6
9NE8Human polymerase epsilon bound to PCNA and DNA with an in-situ-generated mismatch in the …ELECTRON MICROSCOPY3.6
9F6EHuman DNA polymerase epsilon bound to DNA and PCNA (ajar conformation)ELECTRON MICROSCOPY3.74
9F6FHuman DNA polymerase epsilon bound to DNA and PCNA (closed conformation)ELECTRON MICROSCOPY3.75
9NEAHuman polymerase epsilon bound to PCNA and DNA with a pre-existing mismatch in the …ELECTRON MICROSCOPY3.81
9NE9Human polymerase epsilon bound to PCNA and DNA with a pre-existing mismatch in the …ELECTRON MICROSCOPY3.88
9F6JHuman DNA Polymerase epsilon bound to T-C mismatched DNA (Polymerase Arrest state)ELECTRON MICROSCOPY3.9
9F6LHuman DNA Polymerase epsilon bound to T-C mismatched DNA (Mismatch Excision state)ELECTRON MICROSCOPY3.9
9F6KHuman DNA Polymerase epsilon bound to T-C mismatched DNA (Frayed Substrate state)ELECTRON MICROSCOPY4.2
9B8SHuman polymerase epsilon bound to PCNA and DNA in the nucleotide exchange stateELECTRON MICROSCOPY5.01

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q07864-F180.320.31

Human Protein Atlas

Protein class: Enzymes, ENZYME proteins, Transferases, Metabolic proteins, Predicted intracellular proteins, Plasma proteins, Cancer-related genes, Mutated cancer genes, Disease related genes, FDA approved drug targets, Small molecule drugs, Human disease related genes, Congenital malformations, Other congenital malformations, Essential proteins

Protein evidence: Evidence at protein level

Subcellular location (HPA, imaging): nucleoplasm; plasma membrane

Antibody reliability (HPA): IF enhanced

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (8)

PositionRole
2190Zn(2+)
2221[4Fe-4S] cluster
2224[4Fe-4S] cluster
2236[4Fe-4S] cluster
2238[4Fe-4S] cluster
2158Zn(2+)
2161Zn(2+)
2187Zn(2+)

Post-translational modifications (4)

TypePositions
Phosphoserine1184, 1297, 1317, 1940

Function

Pathways and Gene Ontology

Reactome pathways

10 curated (TAS) of 30; 0 disease pathways. Curated-first; evidence = TAS (manually curated) vs IEA (electronic inference).

30 pathways:

IDPathwayEvidence
R-HSA-68962Activation of the pre-replicative complexcurated
R-HSA-68952DNA replication initiationcurated
R-HSA-5696400Dual Incision in GG-NERcurated
R-HSA-6782135Dual incision in TC-NERcurated
R-HSA-5696397Gap-filling DNA repair synthesis and ligation in GG-NERcurated
R-HSA-6782210Gap-filling DNA repair synthesis and ligation in TC-NERcurated
R-HSA-5685942HDR through Homologous Recombination (HRR)curated
R-HSA-5651801PCNA-Dependent Long Patch Base Excision Repaircurated
R-HSA-110314Recognition of DNA damage by PCNA-containing replication complexcurated
R-HSA-5656169Termination of translesion DNA synthesiscurated
R-HSA-73884Base Excision Repair—
R-HSA-1640170Cell Cycle—
R-HSA-69278Cell Cycle, Mitotic—
R-HSA-73893DNA Damage Bypass—
R-HSA-5693532DNA Double-Strand Break Repair—
R-HSA-73894DNA Repair—
R-HSA-69306DNA Replication—
R-HSA-69002DNA Replication Pre-Initiation—
R-HSA-69206G1/S Transition—
R-HSA-5696399Global Genome Nucleotide Excision Repair (GG-NER)—
R-HSA-5693567HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)—
R-HSA-5693538Homology Directed Repair—
R-HSA-453279Mitotic G1 phase and G1/S transition—
R-HSA-5696398Nucleotide Excision Repair—
R-HSA-110373Resolution of AP sites via the multiple-nucleotide patch replacement pathway—
R-HSA-73933Resolution of Abasic Sites (AP sites)—
R-HSA-69242S Phase—
R-HSA-69239Synthesis of DNA—
R-HSA-6781827Transcription-Coupled Nucleotide Excision Repair (TC-NER)—
R-HSA-110313Translesion synthesis by Y family DNA polymerases bypasses lesions on DNA template—

MSigDB gene sets: 511 (showing top): GOBP_DNA_TEMPLATED_DNA_REPLICATION_MAINTENANCE_OF_FIDELITY, VERHAAK_AML_WITH_NPM1_MUTATED_DN, REACTOME_DNA_REPLICATION, BENPORATH_ES_WITH_H3K27ME3, FISCHER_G1_S_CELL_CYCLE, GOMF_NUCLEASE_ACTIVITY, GOBP_DNA_STRAND_ELONGATION_INVOLVED_IN_DNA_REPLICATION, GOBP_CELL_CYCLE_PHASE_TRANSITION, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, GRAESSMANN_RESPONSE_TO_MC_AND_DOXORUBICIN_DN, FRASOR_RESPONSE_TO_SERM_OR_FULVESTRANT_DN, KAUFFMANN_DNA_REPAIR_GENES, PUJANA_CHEK2_PCC_NETWORK, GOBP_NUCLEOTIDE_EXCISION_REPAIR, GOMF_DNA_POLYMERASE_ACTIVITY

GO Biological Process (13): G1/S transition of mitotic cell cycle (GO:0000082), mitotic cell cycle (GO:0000278), DNA synthesis involved in DNA repair (GO:0000731), DNA replication (GO:0006260), DNA-templated DNA replication (GO:0006261), leading strand elongation (GO:0006272), base-excision repair, gap-filling (GO:0006287), nucleotide-excision repair, DNA gap filling (GO:0006297), DNA replication proofreading (GO:0045004), embryonic organ development (GO:0048568), DNA repair (GO:0006281), DNA damage response (GO:0006974), DNA biosynthetic process (GO:0071897)

GO Molecular Function (15): nucleotide binding (GO:0000166), DNA binding (GO:0003677), chromatin binding (GO:0003682), DNA-directed DNA polymerase activity (GO:0003887), zinc ion binding (GO:0008270), single-stranded DNA 3’-5’ DNA exonuclease activity (GO:0008310), 4 iron, 4 sulfur cluster binding (GO:0051539), nucleic acid binding (GO:0003676), protein binding (GO:0005515), transferase activity (GO:0016740), nucleotidyltransferase activity (GO:0016779), hydrolase activity (GO:0016787), DNA polymerase activity (GO:0034061), metal ion binding (GO:0046872), iron-sulfur cluster binding (GO:0051536)

GO Cellular Component (4): nucleus (GO:0005634), nucleoplasm (GO:0005654), plasma membrane (GO:0005886), epsilon DNA polymerase complex (GO:0008622)

Reactome top-level categories

15 top-level categories:

CategoryPathways
DNA Damage Bypass2
Global Genome Nucleotide Excision Repair (GG-NER)2
Transcription-Coupled Nucleotide Excision Repair (TC-NER)2
DNA Repair2
Nucleotide Excision Repair2
Resolution of AP sites via the multiple-nucleotide patch replacement pathway1
Translesion synthesis by Y family DNA polymerases bypasses lesions on DNA template1
HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)1
Synthesis of DNA1
DNA Replication Pre-Initiation1
G1/S Transition1
Resolution of Abasic Sites (AP sites)1
Cell Cycle, Mitotic1
DNA Double-Strand Break Repair1
Homology Directed Repair1

GO top-level categories

43 GO namespaces:

CategoryTerms
DNA metabolic process5
DNA biosynthetic process3
binding3
DNA repair2
catalytic activity2
mitotic cell cycle1
mitotic cell cycle phase transition1
cell cycle G1/S phase transition1
cell cycle1
mitotic nuclear division1
DNA replication1
DNA replication, synthesis of primer1
DNA strand elongation involved in DNA replication1
DNA replication, removal of RNA primer1
base-excision repair1
nucleotide-excision repair1
DNA-templated DNA replication maintenance of fidelity1
embryo development1
animal organ development1
DNA damage response1
cellular response to stress1
nucleic acid biosynthetic process1
nucleoside phosphate binding1
heterocyclic compound binding1
nucleic acid binding1
DNA polymerase activity1
transition metal ion binding1
3’-5’-DNA exonuclease activity1
single-stranded DNA exodeoxyribonuclease activity1
iron-sulfur cluster binding1
transferase activity, transferring phosphorus-containing groups1
nucleotidyltransferase activity1
catalytic activity, acting on DNA1
cation binding1
metal cluster binding1
intracellular membrane-bounded organelle1
nuclear lumen1
cellular anatomical structure1
membrane1
cell periphery1
nuclear chromosome1
DNA polymerase complex1
nuclear protein-containing complex1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 13 of 32 annotations. The rest are phylogenetic / computational / electronic (IEA).

13 experimentally-supported GO terms:

GO termNSEvidence
DNA replicationBPmutant phenotype
DNA synthesis involved in DNA repairBPmutant phenotype
DNA-templated DNA replicationBPdirect assay
G1/S transition of mitotic cell cycleBPmutant phenotype
base-excision repair, gap-fillingBPdirect assay
nucleotide-excision repair, DNA gap fillingBPmutant phenotype
epsilon DNA polymerase complexCCdirect assay
nucleoplasmCCdirect assay
nucleusCCdirect assay
plasma membraneCCdirect assay
DNA bindingMFdirect assay
DNA-directed DNA polymerase activityMFmutant phenotype
chromatin bindingMFdirect assay

Protein interactions and networks

STRING

showing 15 of 2,173 interactions by confidence (×1000):

Protein AProtein BPartner UniProtScore
POLEPOLD1P28340979
POLEPOLE2P56282960
POLEPOLE4Q9NR33930
POLEPOLE3Q9NRF9913
POLEMSH6P52701866
POLEREV3LO60673852
POLEMSH2P43246842
POLEMLH1P40692834
POLEPMS2P54278828
POLEMSH3P20585801
POLEMUTYHQ9UIF7784
POLELIG3P49916772
POLEXRCC1P18887748
POLENTHL1P78549730
POLELIG1P18858730

IntAct

Human interaction partners of POLE in IntAct, one row per partner (best MIscore; records = supporting IntAct interaction records).

21 partners by confidence:

PartnerInteraction typeMIscoreRecords
POLE2physical association0.86010
BRAFphysical association0.6004
ABHD16Aphysical association0.5603
POLE4association0.5302
LRRK2direct interaction0.4401
BLTP3Aphysical association0.4001
CFTRphysical association0.3701
HSPA8association0.3501
LIASassociation0.3501
FBXW7proximity0.2704
SMAD4proximity0.2704
SMARCA4proximity0.2704
SPOPproximity0.2704
AKT1proximity0.2701
EGFRproximity0.2701
PTENproximity0.2701
PTPN11proximity0.2701
TP53proximity0.2701
DISC1physical association0.0001
MYCphysical association0.0001
WHR1physical association0.0001

BioGRID (207 interactions; top human partners by supporting records): POLE2 (Affinity Capture-MS; 11 records), PCNA (Co-fractionation; 6 records), POLE3 (Co-fractionation; 6 records), CIAO1 (Affinity Capture-Western; 4 records), MMS19 (Affinity Capture-Western; 4 records), CLSPN (Affinity Capture-Western; 3 records), DNAJC7 (Affinity Capture-MS; 3 records), LRRC46 (Affinity Capture-MS; 3 records), MYC (Affinity Capture-MS; 3 records), POLE4 (Co-fractionation; 3 records), BAG2 (Affinity Capture-MS; 2 records), C16orf45 (Affinity Capture-MS; 2 records), DKKL1 (Affinity Capture-MS; 2 records), FAM96A (Affinity Capture-MS; 2 records), KRAS (Synthetic Lethality; 2 records)

SIGNOR signaling

1 signaling interactions:

AEffectBMechanism
POLE“form complex”“DNA polymerase epsilon”binding

Protein complexes (CORUM) (5)

Experimentally-characterized complexes this protein is a subunit of (★ = the complex contains a known drug target).

5 complexes by size:

ComplexSubunitsMembers
★ RC complex, S-phase-specific23POLD4, POLE2, POLE4, CCNA2, CDK2, POLD2, POLD3, RFC2, POLE, RFC1, RFC5, RPA3, LIG1, PARP1, POLA1, POLD1, RFC3, RPA2, POLA2, POLE3, RFC4, RPA1, TOP1
★ DNA synthesome complex, breast cancer MCF7 cells23POLA2, POLD3, POLE4, PRIM1, RFC1, RPA1, PCNA, POLD4, POLE2, POLE3, RFC4, TOP1, POLA1, RFC2, RFC3, RFC5, RPA2, RPA3, TOP2A, POLD1, POLD2, POLE, PRIM2
★ DNA synthesome complex, breast cancer cells20POLD3, POLE4, RFC2, RFC3, POLA2, POLE3, LIG1, PARP1, PCNA, POLD2, PRIM1, PRIM2, RFC1, RFC4, POLD4, POLE, POLE2, RFC5, POLA1, POLD1
★ RC complex, G2/M-phase-specific19CCNB1, POLA1, POLA2, POLD2, RPA1, RPA2, CDK1, POLD3, RFC1, RFC2, RPA3, POLD1, POLD4, POLE, POLE3, PARP1, POLE2, POLE4, TOP1
★ DNA polymerase epsilon4POLE, POLE2, POLE3, POLE4

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 21 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Ub-specific processing proteases515.6×4e-03

GO biological processes:

GO termPartnersFoldFDR
positive regulation of miRNA transcription572.6×4e-06
positive regulation of gene expression59.7×5e-03
negative regulation of apoptotic process58.7×7e-03

Disease & clinical

Cancer significance

From intOGen — cancer-driver classification: activating (oncogene-like) across 2 cancer types — ACC, BLCA.

intOGen’s role is a computational inference from cohort mutation patterns and may diverge from the gene’s curated/literature role; read it alongside the evidence above.

Genetic variants

Variant evidence for POLE: 11,128 ClinVar records (482 pathogenic / likely pathogenic); 4 CIViC cancer variants; 3 GWAS associations. Per-variant detail is on Sugi Variant.

ClinVar

11,128 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic354
Likely pathogenic128
Uncertain significance5512
Likely benign3744
Benign131

Top pathogenic / likely-pathogenic (15)

Showing the 15 best-reviewed of 482 pathogenic / likely-pathogenic ClinVar records, ranked by ClinVar review status (expert panel → multiple submitters → single submitter), then by number of submitting labs.

Variant IDHGVSClassificationReviewSubmitters
40046NM_006231.4(POLE):c.1270C>G (p.Leu424Val)Pathogeniccriteria provided, multiple submitters, no conflicts11
2717088NM_006231.4(POLE):c.5678+1G>TPathogeniccriteria provided, multiple submitters, no conflicts2
4772281NM_006231.4(POLE):c.507_508dup (p.Ile170fs)Pathogeniccriteria provided, multiple submitters, no conflicts2
806968NM_006231.4(POLE):c.5379-5_5384delLikely pathogeniccriteria provided, multiple submitters, no conflicts2
928703NM_006231.4(POLE):c.1306C>T (p.Pro436Ser)Likely pathogeniccriteria provided, multiple submitters, no conflicts2
2636782NM_006231.4(POLE):c.3276-1G>CLikely pathogeniccriteria provided, multiple submitters, no conflicts2
2582706NM_006231.4(POLE):c.2154del (p.Lys717_Tyr718insTer)Pathogeniccriteria provided, single submitter2
405692NM_006231.4(POLE):c.3501_3502insGGTCAAA (p.His1168fs)Pathogeniccriteria provided, single submitter1
405812NM_006231.4(POLE):c.3510dup (p.Leu1171fs)Pathogeniccriteria provided, single submitter1
405813NM_006231.4(POLE):c.1673del (p.Cys558fs)Pathogeniccriteria provided, single submitter1
473697NM_006231.4(POLE):c.4900del (p.Arg1634fs)Pathogeniccriteria provided, single submitter1
540728NM_006231.4(POLE):c.340C>T (p.Arg114Ter)Pathogeniccriteria provided, single submitter1
540730NM_006231.4(POLE):c.4420del (p.Ala1474fs)Pathogeniccriteria provided, single submitter1
540766NM_006231.4(POLE):c.3534C>A (p.Tyr1178Ter)Pathogeniccriteria provided, single submitter1
540827NM_006231.4(POLE):c.6434_6438del (p.Arg2145fs)Pathogeniccriteria provided, single submitter1

Per-variant reference — Sugi Variant

Explore POLE’s pathogenic and likely-pathogenic variants individually — each with its ClinVar classification and conditions, applied ACMG criteria (ClinGen expert panel, where curated), the calibrated in-silico predictors (AlphaMissense, REVEL, SaProt, conservation), gnomAD frequency, and the predictor-disagreement QC signal — on Sugi Variant.

SpliceAI

Top 10 splice-impact sites by Δscore (adjacent positions with the same effect merged into one range; 23 predictions of 4,615):

Position(s)EffectΔscoreSites
12:132624811acceptor_loss1.0000
12:132624815acceptor_gain1.0000
12:132624903–132624904donor_loss1.00005
12:132625643–132625644donor_loss1.00003
12:132634184–132634185donor_loss1.00004
12:132635971–132635972acceptor_gain1.00002
12:132638012–132638013donor_loss1.00004
12:132641630donor_gain1.0000
12:132641677donor_gain1.0000
12:132641682donor_gain1.0000

AlphaMissense

5,865 missense substitutions predicted likely pathogenic (of 15,124 scored), across 1,433 residues. Top 20 hotspot residues, ranked by the number of likely-pathogenic substitutions (of those reachable by a single-nucleotide change), then by mean score:

ResidueLikely-pathogenic substitutionsMean am_pathogenicityMax am_pathogenicity
M63090.9790.999
M82090.9690.998
M94090.9691.000
M83190.9610.998
M29590.9590.998
M103990.9520.999
M29990.9380.993
M44490.8910.991
M50690.8910.988
H62481.0001.000
D62681.0001.000
D86281.0001.000
D86080.9991.000
D41480.9981.000
D46280.9981.000
D93480.9980.999
D27580.9970.999
D40680.9970.999
F97180.9971.000
N81380.9961.000

HPA cancer prognostics

RNA cancer specificity: Low cancer specificity

Human Protein Atlas survival analysis — favorable = higher expression predicts better survival.

1 prognostic cancer types:

CancerPrognosticp-value
Skin Cutaneous Melanoma (TCGA)unfavorable0.000682

Disease associations

OMIM: gene MIM:174762 | disease phenotypes: MIM:615083, MIM:618336, MIM:615139, MIM:219721, MIM:114500

GenCC curated gene-disease

6 curated gene-disease records:

DiseaseClassificationInheritanceRecords
POLE-related polyposis and colorectal cancer syndromeDefinitiveAutosomal dominant2
colorectal cancer, susceptibility to, 12StrongAutosomal dominant3
facial dysmorphism-immunodeficiency-livedo-short stature syndromeStrongAutosomal recessive4
intrauterine growth retardation, metaphyseal dysplasia, adrenal hypoplasia congenita, genital anomalies, and immunodeficiencyStrongAutosomal dominant2
Polymerase proofreading-related adenomatous polyposisSupportiveAutosomal dominant
IMAGe syndromeSupportiveAutosomal dominant

ClinGen Gene-Disease Validity

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

1 validity classifications:

DiseaseClassificationInheritance
POLE-related polyposis and colorectal cancer syndromeDefinitiveAD

Genomics England panels (PanelApp)

Clinical diagnostic gene panels including this gene (11 panels, 11 green/diagnostic-grade). Confidence: green = diagnostic, amber = moderate.

11 panels:

PanelRating
Adult solid tumours cancer susceptibilitygreen
Adult solid tumours for rare diseasegreen
COVID-19 researchgreen
Colorectal cancer pertinent cancer susceptibilitygreen
Congenital adrenal hypoplasiagreen
DDG2Pgreen
Fetal anomaliesgreen
GI tract tumoursgreen
Inherited polyposis and early onset colorectal cancer - germline testinggreen
Paediatric disordersgreen
Primary immunodeficiency or monogenic inflammatory bowel diseasegreen

Mondo (14): colorectal cancer, susceptibility to, 12 (MONDO:0014038), intrauterine growth retardation, metaphyseal dysplasia, adrenal hypoplasia congenita, genital anomalies, and immunodeficiency (MONDO:0032684), facial dysmorphism-immunodeficiency-livedo-short stature syndrome (MONDO:0014058), hereditary neoplastic syndrome (MONDO:0015356), myoepithelial tumor (MONDO:0002380), cystic fibrosis-gastritis-megaloblastic anemia syndrome (MONDO:0009062), familial colorectal cancer type X (MONDO:0018604), Polymerase proofreading-related adenomatous polyposis (MONDO:0018653), familial colorectal cancer (MONDO:0023113), POLE-related polyposis and colorectal cancer syndrome (MONDO:0100287), colorectal carcinoma (MONDO:0024331), colon carcinoma (MONDO:0002032), colorectal cancer (MONDO:0005575), IMAGe syndrome (MONDO:0013873)

Orphanet (7): Attenuated familial adenomatous polyposis (Orphanet:220460), Facial dysmorphism-immunodeficiency-livedo-short stature syndrome (Orphanet:352712), Inherited cancer-predisposing syndrome (Orphanet:140162), Cystic fibrosis-gastritis-megaloblastic anemia syndrome (Orphanet:2575), Familial colorectal cancer Type X (Orphanet:440437), Polymerase proofreading-related polyposis (Orphanet:447877), NON RARE IN EUROPE: Colorectal cancer (Orphanet:466667)

HPO phenotypes

showing 60 of 116 phenotypes (HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000007Autosomal recessive inheritance
HP:0000028Cryptorchidism
HP:0000047Hypospadias
HP:0000054Micropenis
HP:0000078Abnormality of the genital system
HP:0000126Hydronephrosis
HP:0000135Hypogonadism
HP:0000252Microcephaly
HP:0000272Malar flattening
HP:0000337Broad forehead
HP:0000347Micrognathia
HP:0000358Posteriorly rotated ears
HP:0000369Low-set ears
HP:0000460Narrow nose
HP:0000470Short neck
HP:0000475Broad neck
HP:0000505Visual impairment
HP:0000708Atypical behavior
HP:0000716Depression
HP:0000737Irritability
HP:0000738Hallucinations
HP:0000739Anxiety
HP:0000824Decreased response to growth hormone stimulation test
HP:0000835Adrenal hypoplasia
HP:0000938Osteopenia
HP:0000957Cafe-au-lait spot
HP:0000964Eczematoid dermatitis
HP:0001123Visual field defect
HP:0001250Seizure
HP:0001252Hypotonia
HP:0001260Dysarthria
HP:0001276Hypertonia
HP:0001288Gait disturbance
HP:0001371Flexion contracture
HP:0001402Hepatocellular carcinoma
HP:0001511Intrauterine growth retardation
HP:0001824Weight loss
HP:0002007Frontal bossing
HP:0002017Nausea and vomiting
HP:0002019Constipation
HP:0002024Malabsorption
HP:0002027Abdominal pain
HP:0002076Migraine
HP:0002110Bronchiectasis
HP:0002167Abnormal speech pattern
HP:0002239Gastrointestinal hemorrhage
HP:0002354Memory impairment
HP:0002376Developmental regression
HP:0002516Increased intracranial pressure
HP:0002650Scoliosis
HP:0002653Bone pain
HP:0002671Basal cell carcinoma
HP:0002719Recurrent infections
HP:0002721Immunodeficiency
HP:0002783Recurrent lower respiratory tract infections
HP:0002788Recurrent upper respiratory tract infections
HP:0002850Decreased circulating IgM concentration
HP:0002893Pituitary adenoma
HP:0002894Neoplasm of the pancreas

GWAS associations

3 associations:

StudyTraitp-value
GCST005951_13Body mass index6e-9
GCST002829_6Urate levels in overweight individuals4e-6
GCST009391_58Metabolite levels5e-6

EFO canonical traits (from GWAS)

2 canonical traits:

EFO IDTrait name
EFO:0004531urate measurement
EFO:0004340body mass index

MeSH disease descriptors

3 disease descriptors:

DescriptorNameTree numbers
D009208MyoepitheliomaC04.557.435.585
D009386Neoplastic Syndromes, HereditaryC04.700; C16.320.700
C537039Lubani Al Saleh Teebi syndrome *(supp.)*

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL2363042 (PROTEIN FAMILY)

Clinical evidence (CIViC)

Drug × variant × indication, from 4 curated evidence items; also 4 prognostic, 1 functional. CIViC evidence level: A (validated) → B (clinical) → C (case study) → D (preclinical) → E (inferential).

4 predictive associations by evidence level:

VariantTherapyIndicationEffectLevelCIViC
POLE MutationPembrolizumabGlioblastomaSensitivity/ResponseCIViC CEID1861
POLE MutationPembrolizumabEndometrial CancerSensitivity/ResponseCIViC CEID1862
POLE MutationPembrolizumabColorectal CancerSensitivity/ResponseCIViC CEID7469
POLE V411LColorectal CancerSensitivity/ResponseCIViC CEID8631

CIViC curated variants (4)

Named clinical variants curated in CIViC for this gene (the catalogue beneath the predictive evidence above):

P286R (missense variant), V411L (missense variant), S459F (missense variant), Mutation (gene variant).

PharmGKB: 1 entry (CPIC guideline: no)

CTD chemical–gene interactions

49 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
sodium arseniteincreases expression, decreases expression, increases abundance4
methacrylaldehydeaffects cotreatment, increases expression, increases oxidation, increases abundance2
Acroleinaffects cotreatment, increases expression, increases oxidation, increases abundance2
Ozoneaffects cotreatment, increases expression, increases oxidation, increases abundance2
FR900359decreases phosphorylation1
dicrotophosincreases expression1
triphenyl phosphateaffects expression1
alpha-pineneincreases expression, increases oxidation, increases abundance, affects cotreatment1
geranioldecreases expression1
2,2’-methylenebis(4-methyl-6-tert-butylphenol)affects expression, affects response to substance1
beta-lapachonedecreases expression1
arseniteaffects binding, decreases reaction1
zinc chromatedecreases expression, increases abundance1
manganese chloridedecreases expression, increases abundance1
2,3-bis(3’-hydroxybenzyl)butyrolactoneincreases expression, affects cotreatment1
aflatoxin B2increases methylation1
phenethyl isothiocyanatedecreases expression1
chromium hexavalent iondecreases expression, increases abundance1
CGP 52608affects binding, increases reaction1
jinfukangincreases expression1
4-(4-((5-(4,5-dimethyl-2-nitrophenyl)-2-furanyl)methylene)-4,5-dihydro-3-methyl-5-oxo-1H-pyrazol-1-yl)benzoic aciddecreases expression1
Sunitinibdecreases expression1
Arsenic Trioxidedecreases expression1
Troglitazonedecreases expression1
Acetaminophenincreases expression1
Glyphosatedecreases expression1
Air Pollutantsaffects cotreatment, increases abundance, increases expression, increases oxidation1
Ethanoldecreases expression1
Arsenicincreases abundance, decreases expression1
Atrazinedecreases expression1

Cellosaurus cell lines

40 cell lines: 39 cancer cell line, 1 hybrid cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_2529IshikawaCancer cell lineFemale
CVCL_7260ECC-1Cancer cell lineFemale
CVCL_8783Ishikawa (London) 02 ER+Cancer cell lineFemale
CVCL_9996IK-90Cancer cell lineFemale
CVCL_C3G7Ishikawa 3-H-12 PRA-14Cancer cell lineFemale
CVCL_C3G8Ishikawa 3-H-12 PRB-59Cancer cell lineFemale
CVCL_C9CCISHIKAWA-LucCancer cell lineFemale
CVCL_D199Ishikawa 3-H-12Cancer cell lineFemale
CVCL_F1R3HyCyte Ishikawa KO-hCTNNBIP1Cancer cell lineFemale
CVCL_F5PNEDITGENE Ishikawa-Cas9Cancer cell lineFemale

Clinical trials (associated diseases)

Via MONDO — disease-level, not drug-specific.

showing 60 of 301 trials:

NCTPhaseStatusTitle
NCT01169220Phase 4COMPLETEDBowel Preparation for Inpatient Colonoscopy
NCT01170754Phase 4COMPLETEDMiralax (PEG 3350) vs. Golytely as Bowel Preparation for Screening Colonoscopy
NCT02052557Phase 4COMPLETEDThe Effect of Exparel on Post Operative Pain and Narcotic Use After Colon Surgery
NCT02078726Phase 4COMPLETEDGlucagon Use in Colonoscopies
NCT02231203Phase 4COMPLETEDEffect of Omega-3 Fatty Acids on the Perioperative Immune Response and Erythrocyte Function
NCT02314871Phase 4COMPLETEDEffects of Different Types of Perioperative Analgesia on Minimal Residual Disease Development After Colon Cancer Surgery
NCT02746432Phase 4UNKNOWNInsulin Therapy Reduce Post-Operative Inflammatory Response After Curative Colorectal Cancer Resection: Randomization Controlled Trial
NCT02887365Phase 4UNKNOWNA Phase II Study of Tegafur-Uracil as Maintenance Chemotherapy in Patients With Stage II of Colon Cancer
NCT02937506Phase 4COMPLETEDPatient Satisfaction With Propofol for Out Patient Colonoscopy
NCT02958566Phase 4UNKNOWNMultimodal Narcotic Limited Perioperative Pain Control With Colorectal Surgery
NCT04269369Phase 4UNKNOWNImplementation of Pre-emptive Geno- and Phenotyping in 5-Fluorouracil- or Capecitabine-treated Patients
NCT04311099Phase 4COMPLETEDOptimal Peripheral Nerve Block After Minimally Invasive Colon Surgery
NCT04709770Phase 4UNKNOWNLow-volume vs High-volume Polyethylene Glycol Based Bowel Preparation for Colonoscopy in People Receiving Hemodialysis
NCT05250648Phase 4RECRUITINGClinical Trial on HIPEC With Mitomycin C in Colon Cancer Peritoneal Metastases (GECOP-MMC)
NCT07802847Phase 4NOT_YET_RECRUITINGInnovative and Cooperative Pathway Integrating Oncogeriatric, Pharmaceutical and Pharmacological Follow-up in Elderly Patients.
NCT00002968Phase 3COMPLETEDEdrecolomab in Treating Patients With Stage II Colon Cancer
NCT00003835Phase 3COMPLETEDCombination Chemotherapy in Treating Patients With Stage III Colon Cancer
NCT00003873Phase 3COMPLETEDFluorouracil With or Without Eniluracil in Treating Patients With Advanced Colorectal Cancer
NCT00004931Phase 3COMPLETEDFluorouracil Plus Leucovorin With or Without Oxaliplatin in Treating Patients With Stage II or Stage III Colon Cancer
NCT00005036Phase 3COMPLETEDIrinotecan Compared With Combination Chemotherapy in Treating Patients With Advanced Colorectal Cancer
NCT00005094Phase 3COMPLETEDCelecoxib to Prevent Colorectal Cancer in Patients Who Have Undergone Surgery to Remove Polyps
NCT00025337Phase 3COMPLETEDCombination Chemotherapy With or Without Bevacizumab Compared With Bevacizumab Alone in Treating Patients With Advanced or Metastatic Colorectal Cancer That Has Been Previously Treated
NCT00070122Phase 3TERMINATEDCombination Chemotherapy and Bevacizumab in Treating Patients With Locally Advanced, Metastatic, or Recurrent Colorectal Cancer
NCT00079274Phase 3COMPLETEDComparison of Combination Chemotherapy Regimens With or Without Cetuximab in Treating Patients Who Have Undergone Surgery For Stage III Colon Cancer
NCT00096278Phase 3COMPLETEDFluorouracil, Leucovorin, and Oxaliplatin With or Without Bevacizumab in Treating Patients Who Have Undergone Surgery for Stage II or Stage III Colon Cancer
NCT00188305Phase 3COMPLETEDA Randomized Trial of Cancer Risk and Health Education in Relatives of Colorectal Cancer Patients
NCT00195585Phase 3COMPLETEDStudy Evaluating Isovorin in Colon Cancer
NCT00217737Phase 3COMPLETEDOxaliplatin, Leucovorin, and Fluorouracil With or Without Bevacizumab in Treating Patients Who Have Undergone Surgery for Stage II Colon Cancer
NCT00230646Phase 3COMPLETEDPromoting Physical Activity After Colorectal Cancer
NCT00309530Phase 3COMPLETEDRandomized Study on Adjuvant Chemotherapy and Adjuvant Chemo-Immunotherapy in Colon Carcinoma Dukes C
NCT00309543Phase 3COMPLETEDRandomized Trial on Adjuvant Chemotherapy in Colon Carcinoma Dukes B
NCT00337389Phase 3UNKNOWNPhase III Randomized Study of 5-FU, CoFactor, and Avastin vs. 5-FU, LV and Avastin for First-Line Colorectal Cancer.
NCT00467922Phase 3COMPLETEDAn Assessment of Goal-Directed Intraoperative Fluid Management in Hand Assisted Laparoscopic Colectomy
NCT00499369Phase 3TERMINATEDIrinotecan and Cetuximab With or Without Bevacizumab in Treating Patients With Metastatic Colorectal Cancer That Progressed During First-Line Therapy
NCT00509444Phase 3COMPLETEDCancer Prevention and Treatment Among African American Older Adults: Treatment Trial
NCT00646607Phase 3COMPLETEDFOLFOX-4 3months Versus 6 Months and Bevacizumab as Adjuvant Therapy for Patients With Stage II/III Colon Cancer
NCT00687830Phase 3COMPLETEDEfficacy of Morning-only Bowel Preparation for Afternoon Colonoscopy.
NCT00756548Phase 3COMPLETEDBLI850-302: BLI850 vs an Approved Active Control Bowel Preparation in Adult Subjects Undergoing Colonoscopy
NCT00756977Phase 3COMPLETEDBLI850 vs an Active Control Bowel Preparation in Adult Subjects Undergoing Colonoscopy
NCT00894725Phase 3COMPLETEDLaparoscopic Versus Open Left Colonic Resection
NCT00911170Phase 3COMPLETEDPAVES: Pegfilgrastim Anti-vascular Endothelial Growth Factor (VEGF) Evaluation Study
NCT01092481Phase 3UNKNOWNStudy Investigating the Role of Oxaliplatin Duration in Modified FOLFOX-6 or CAPOX Regimen as Adjuvant Colon Cancer Therapy
NCT01460589Phase 3ACTIVE_NOT_RECRUITINGEarly Commencement of Adjuvant Chemotherapy for Colon Cancer
NCT01483443Phase 3COMPLETEDOophorectomy Followed by Chemotherapy Versus Chemotherapy Alone in Colorectal Cancer Patients
NCT01606098Phase 3COMPLETEDThe Role of Surgery of the Primary Tumour in Patients With Synchronous Unresectable Metastases of Colorectal Cancer
NCT01727388Phase 3COMPLETEDInformativeness to Digital Rectal Examination
NCT01918527Phase 3COMPLETEDNeoadjuvant Chemotherapy Versus Standard Treatment in Patients With Locally Advanced Colon Cancer
NCT02254486Phase 3COMPLETEDMulticenter Randomized Parallel Group Phase III Study Comparing the Bowel Cleansing Efficacy, Safety and Tolerability of NER1006 Versus Trisulfate Solution Using 2-Day Split-Dosing Regimen in Adults
NCT02280278Phase 3UNKNOWNCytokine-induced Killer Cell Immunotherapy for Surgical Resected Stage III Colorectal Cancer Patients After Chemotherapy
NCT02301286Phase 3ACTIVE_NOT_RECRUITINGA Trial of Aspirin on Recurrence and Survival in Colon Cancer Patients
NCT02448173Phase 3NOT_YET_RECRUITINGA Multicenter Study of Active Specific Immunotherapy With OncoVax® in Patients With Stage II Colon Cancer
NCT02467582Phase 3TERMINATEDAdjuvant Aspirin Treatment for Colon Cancer Patients
NCT02519140Phase 3WITHDRAWNAssessing How the Viscosity of Submucosal Gel Injections Helps With Endoscopic Mucosal Resections
NCT02572141Phase 3ACTIVE_NOT_RECRUITINGFOLFOX or CAPOX Perioperative Chemotherapy Versus Postoperative Chemotherapy for Locally Advanced Colon Cancer (OPTICAL)
NCT02588248Phase 3TERMINATEDL-Menthol Injection as a Novel Technique During Colonoscopy
NCT02682589Phase 3UNKNOWNOpen Versus Laparoscopic Complete Mesocolic Excision for Locally Advanced Colon Cancer
NCT02912052Phase 3UNKNOWNPerioperative Chemotherapy VS Postoperative Chemotherapy for the Treatment of Colon Cancer With Resectable Liver Metastasis
NCT02912559Phase 3ACTIVE_NOT_RECRUITINGCombination Chemotherapy With or Without Atezolizumab in Treating Patients With Stage III Colon Cancer and Deficient DNA Mismatch Repair
NCT02928692Phase 3UNKNOWNMinocycline Attenuate Postoperative Cognitive Dysfunction and Delirium
NCT02967289Phase 3COMPLETEDIRinotecan and Oxaliplatin for Colon Cancer in Adjuvant Setting