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EPCIP

gene
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Also known as B37PRED81CU062

Summary

EPCIP (exosomal polycystin 1 interacting protein, HGNC:1305) is a protein-coding gene on chromosome 21q22.11, encoding Exosomal polycystin-1-interacting protein (Q9NYP8). Likely to be involved with PKD1 in the detection, sequestration and exocytosis of senescent mitochondria.

Enables identical protein binding activity. Involved in mitocytosis. Located in extracellular exosome and migrasome.

Source: NCBI Gene 56245 — automated summary from GO annotations (Alliance of Genome Resources).

At a glance

  • GWAS associations: 1
  • Clinical variants (ClinVar): 13 total — 1 pathogenic
  • GTEx eGene: eQTL in 13 tissues, sQTL in 3 (q < 0.05)
  • Constraint (gnomAD): pLI 0.00 (LoF-tolerant), LOEUF 1.65 (unconstrained)
  • MANE Select transcript: NM_001162495

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:1305
Approved symbolEPCIP
Nameexosomal polycystin 1 interacting protein
Location21q22.11
Locus typegene with protein product
StatusApproved
AliasesB37, PRED81, CU062
Ensembl geneENSG00000205929
Ensembl biotypeprotein_coding
Entrez56245

Gene structure

Transcript identifiers

Ensembl transcripts: 7 — 7 protein_coding

MANE Select: ENST00000479548

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

ENST00000479548, ENST00000382373, ENST00000487113, ENST00000490358, ENST00000861348, ENST00000946954, ENST00001131806

RefSeq mRNA: 3 — MANE Select: NM_001162495 NM_001162495, NM_001162496, NM_019596

CCDS: CCDS42919

Canonical transcript exons

ENST00000479548 — 4 exons

ExonStartEnd
ENSE000014918713279067332794485
ENSE000018178223280764232807716
ENSE000019157443281359232813703
ENSE000036343403281057432810654

Expression profiles

Bgee: expression breadth ubiquitous, 110 present calls, max score 73.08.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.5775 / max 135.3765, expressed in 120 samples.

Highest expression (Bgee): ovary, male germ line stem cell (sensu Vertebrata) in testis, adult mammalian kidney, adenohypophysis, pituitary gland.

Genetic regulation across tissues (GTEx eQTL / sQTL)

EPCIP is an eGene in GTEx v10 — its expression is genetically regulated (eQTL) in 13 tissues and its splicing (sQTL) in 3 (q < 0.05). Strongest associations first; slope = normalized effect of the lead variant’s alternative allele.

16 significant tissue × QTL associations:

TissueQTLq-valueSlopeLead variant
Pituitarysqtl7.4e-28+1.1321:32796871:A:G
Ovarysqtl8.4e-13+1.0121:32784619:G:A
Esophagus Musculariseqtl8.4e-11+0.3921:32807134:G:A
Thyroideqtl1.3e-04+0.3221:32776261:G:GTATAA
Esophagus Mucosaeqtl3.4e-04+0.3021:32808906:C:A
Colon Sigmoideqtl4.7e-03+0.3321:32772234:A:G
Kidney Cortexsqtl6.6e-03+0.9321:32808906:C:A
Nerve Tibialeqtl1.2e-02+0.2021:32772234:A:G
Esophagus Gastroesophageal Junctioneqtl1.3e-02-0.2421:32622424:A:G
Breast Mammary Tissueeqtl1.4e-02+0.2321:32784098:T:G
Brain Putamen basal gangliaeqtl1.4e-02-0.4821:32491338:G:A
Skin Sun Exposed Lower legeqtl1.5e-02+0.2121:32782926:C:A
Skin Not Sun Exposed Suprapubiceqtl1.8e-02+0.2321:32782926:C:A
Testiseqtl2.3e-02+0.7921:32348582:T:C
Brain Frontal Cortex BA9eqtl3.8e-02+0.7621:32152539:T:C
Small Intestine Terminal Ileumeqtl4.4e-02-0.2321:33725717:G:C

FANTOM5 promoters

3 alternative TSS:

Promoter IDTPM avgSamples expressed
1902150.263372
1902160.262371
1902140.051928

Top tissues by expression

showing 100 of 119 tissues by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
ovaryUBERON:000099273.08gold quality
left ovaryUBERON:000211972.97gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047371.68gold quality
right ovaryUBERON:000211870.02gold quality
adult mammalian kidneyUBERON:000008269.91gold quality
adenohypophysisUBERON:000219669.84gold quality
pituitary glandUBERON:000000769.76gold quality
corpus callosumUBERON:000233668.58gold quality
metanephros cortexUBERON:001053368.27gold quality
kidneyUBERON:000211367.80gold quality
body of pancreasUBERON:000115064.38gold quality
pancreasUBERON:000126463.89gold quality
hypothalamusUBERON:000189862.23gold quality
islet of LangerhansUBERON:000000662.06gold quality
left uterine tubeUBERON:000130361.68gold quality
cortex of kidneyUBERON:000122561.19gold quality
substantia nigraUBERON:000203857.98gold quality
bone marrow cellCL:000209256.34gold quality
fallopian tubeUBERON:000388956.15gold quality
calcaneal tendonUBERON:000370155.59gold quality
tonsilUBERON:000237255.48gold quality
omental fat padUBERON:001041455.47gold quality
adrenal tissueUBERON:001830355.38gold quality
gall bladderUBERON:000211054.91gold quality
ganglionic eminenceUBERON:000402354.81gold quality
C1 segment of cervical spinal cordUBERON:000646954.45gold quality
colonic epitheliumUBERON:000039753.81gold quality
bone marrowUBERON:000237153.78silver quality
vermiform appendixUBERON:000115453.42gold quality
Ammon’s hornUBERON:000195453.26gold quality
ventricular zoneUBERON:000305353.18gold quality
skeletal muscle tissueUBERON:000113452.48gold quality
lower esophagusUBERON:001347352.29gold quality
lower esophagus muscularis layerUBERON:003583352.28gold quality
muscle tissueUBERON:000238551.90gold quality
lymph nodeUBERON:000002950.98gold quality
esophagogastric junction muscularis propriaUBERON:003584149.96gold quality
right uterine tubeUBERON:000130249.75gold quality
smooth muscle tissueUBERON:000113549.48gold quality
right coronary arteryUBERON:000162549.44gold quality
prostate glandUBERON:000236749.25gold quality
temporal lobeUBERON:000187148.99gold quality
cortical plateUBERON:000534348.82gold quality
brainUBERON:000095548.74gold quality
amygdalaUBERON:000187648.74gold quality
fundus of stomachUBERON:000116048.73gold quality
liverUBERON:000210747.77silver quality
caudate nucleusUBERON:000187347.08gold quality
Brodmann (1909) area 9UBERON:001354046.83gold quality
prefrontal cortexUBERON:000045146.78gold quality
small intestine Peyer’s patchUBERON:000345446.77gold quality
small intestineUBERON:000210846.55gold quality
cerebral cortexUBERON:000095646.35gold quality
urinary bladderUBERON:000125546.23gold quality
anterior cingulate cortexUBERON:000983545.88gold quality
esophagusUBERON:000104345.86gold quality
superior frontal gyrusUBERON:000266145.50silver quality
stomachUBERON:000094545.32gold quality
uterine cervixUBERON:000000245.05silver quality
adipose tissueUBERON:000101344.87gold quality
dorsolateral prefrontal cortexUBERON:000983444.82gold quality
frontal cortexUBERON:000187044.79gold quality
multicellular organismUBERON:000046844.31gold quality
adrenal glandUBERON:000236944.16gold quality
intestineUBERON:000016043.95gold quality
body of stomachUBERON:000116143.94gold quality
heart left ventricleUBERON:000208443.62gold quality
muscle layer of sigmoid colonUBERON:003580543.62gold quality
heartUBERON:000094843.51gold quality
putamenUBERON:000187443.50gold quality
lower esophagus mucosaUBERON:003583443.47silver quality
bloodUBERON:000017842.94gold quality
colonUBERON:000115542.89gold quality
right atrium auricular regionUBERON:000663142.86gold quality
placentaUBERON:000198742.69gold quality
nucleus accumbensUBERON:000188242.50gold quality
left adrenal gland cortexUBERON:003582542.48gold quality
endocervixUBERON:000045842.32silver quality
popliteal arteryUBERON:000225042.32silver quality
tibial arteryUBERON:000761042.32silver quality
left adrenal glandUBERON:000123442.08gold quality
myometriumUBERON:000129642.02silver quality
right frontal lobeUBERON:000281041.90gold quality
granulocyteCL:000009441.62silver quality
tibial nerveUBERON:000132341.40silver quality
spleenUBERON:000210641.31silver quality
right adrenal gland cortexUBERON:003582741.11silver quality
leukocyteCL:000073840.96silver quality
transverse colonUBERON:000115740.86silver quality
right adrenal glandUBERON:000123340.84silver quality
mucosa of stomachUBERON:000119940.79silver quality
apex of heartUBERON:000209840.67silver quality
ectocervixUBERON:001224940.65silver quality
muscle of legUBERON:000138340.63gold quality
hindlimb stylopod muscleUBERON:000425240.43gold quality
body of uterusUBERON:000985340.36silver quality
olfactory segment of nasal mucosaUBERON:000538640.27silver quality
right lobe of thyroid glandUBERON:000111939.76silver quality
saliva-secreting glandUBERON:000104439.68silver quality
endometriumUBERON:000129539.67gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-MTAB-8142yes79.70
E-CURD-135no1111.35
E-HCAD-4no78.80
E-ANND-3no1.99

HPA expression

RNA tissue specificity: Tissue enhanced

showing 60 of 68 HPA tissues / cells by nTPM:

Tissue / cellAxisnTPMProtein (IHC)
Choroid plexustissue42.3
Periaqueductal graytissue22.7
Hippocampal formationtissue9.4
Corpus callosumtissue8.5
Ovarytissue8.4not detected
Septumtissue8.1
Epididymistissue7.9medium
Hypothalamustissue7.8
Thalamustissue7.5
Medulla oblongatatissue7.0
Ponstissue6.9
Superior colliculitissue6.6
Basal gangliatissue6.5low
Kidneytissue6.5high
Locus coeruleustissue6.3
Midbraintissue5.9
Hippocampustissue5.7low
Nucleus accumbenstissue4.3
Pituitary glandtissue4.2
Amygdalatissue4.2
Pancreastissue3.8medium
Substantia nigratissue3.7
Spinal cordtissue3.5
Olfactory bulbtissue3.5
Prostatetissue3.4not detected
Ventral forebraintissue3.0
Cerebral cortextissue2.7medium
Postcentral gyrustissue2.7
Entorhinal cortextissue2.7
Occipital cortextissue2.7
Somatosensory cortextissue2.6
Putamentissue2.4
Motor cortextissue2.3
Prefrontal cortextissue2.2
Retrosplenial and cingulate cortextissue2.2
Insular cortextissue2.1
Temporal cortextissue2.0
Retrosplenial cortextissue1.9
Caudate putamentissue1.7
Cerebellumtissue1.3medium
Frontal cortextissue1.0
Tonsiltissue1.0medium
Retinatissue0.9
Bone marrowtissue0.4not detected
Appendixtissue0.4low
Testistissue0.3not detected
Gallbladdertissue0.3not detected
Adrenal glandtissue0.3medium
Lymph nodetissue0.2low
Stomach 1tissue0.2not detected
Heart muscletissue0.2not detected
Seminal vesicletissue0.2medium
Esophagustissue0.2not detected
Livertissue0.2not detected
Fallopian tubetissue0.2not detected
Skin 1tissue0.1not detected
Vaginatissue0.1not detected
Skeletal muscletissue0.1not detected
Smooth muscletissue0.1not detected
Tonguetissue0.1

Brain sub-regions (HPA Brain Atlas): detected in 189; highest nTPM — Periaquaductal grey, lateral (17.3), Corpus callosum, genu (white matter) (13.3), Dorsal raphe nucleus (13.0), Corpus callosum, splenium (white matter) (12.7), Median raphe nucleus (12.1).

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

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

showing 30 of 95 miRNAs:

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-3646100.0073.565283
HSA-MIR-126-5P100.0072.713180
HSA-MIR-6759-5P99.9966.54785
HSA-MIR-366299.9973.825684
HSA-MIR-477599.9875.006394
HSA-MIR-4482-3P99.9872.503147
HSA-MIR-569699.9872.364487
HSA-MIR-60799.9773.625593
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-568899.9673.234504
HSA-MIR-495-3P99.9672.814197
HSA-MIR-1250-3P99.9670.044038
HSA-MIR-6778-3P99.9667.292693
HSA-MIR-590-3P99.9674.346478
HSA-MIR-9983-3P99.9471.483631
HSA-MIR-10527-5P99.9172.283754
HSA-MIR-627-3P99.9071.423316
HSA-MIR-808799.9069.551351
HSA-MIR-153-5P99.8973.866317
HSA-MIR-612499.8769.783551
HSA-MIR-30A-3P99.8769.742928
HSA-MIR-30D-3P99.8769.922917
HSA-MIR-30E-3P99.8769.682942
HSA-MIR-5010-3P99.8370.602357
HSA-MIR-548AZ-5P99.8369.943230
HSA-MIR-548T-5P99.8369.913220
HSA-MIR-684499.8270.692423
HSA-MIR-94499.8270.853042
HSA-MIR-4694-3P99.7969.532640

Functional genomics

gnomAD constraint: pLI 1.66e-05, LOEUF 1.65, missense Z 1.37 — population loss-of-function intolerance (pLI ≥ 0.9 = LoF-intolerant; lower LOEUF = more constrained). gnomAD

Regional missense constraint (gnomAD RMC): no regional variation along ENST00000479548 — one region, missense o/e 0.82.

Literature-anchored findings (GeneRIF, showing 2)

  • The C21orf120 promoter is activated by serum depletion according to promoter reporter assays in HEK 293 cells. (PMID:20494980)
  • Polycystin-1 Interacting Protein-1 (CU062) Interacts with the Ectodomain of Polycystin-1 (PC1). (PMID:37681898)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusEpcipENSMUSG00000039851
rattus_norvegicusEpcipENSRNOG00000028670

Mouse-model phenotypes

Observed phenotypes of the mouse ortholog (MGI:1921637) from MGI (Alliance of Genome Resources) — knockout/mutant phenotypes, ranked by annotation count. 1 distinct phenotype terms.

Mouse phenotype (MP)Records
abnormal vertebral arch morphology1

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
EPCIP-AS1ncRNA54067
SYNJ1protein-coding8867
PAXBP1protein-coding94104
LINC01690ncRNA102724502
PAXBP1-AS1ncRNA100506215
CFAP298-TCP10Lprotein-coding110091775
CFAP298protein-coding56683

Protein

Protein identifiers

Exosomal polycystin-1-interacting protein — Q9NYP8 (reviewed: Q9NYP8)

Alternative names: B37, Polycystin-1-interacting protein 1

All UniProt accessions (2): Q9NYP8, H7BYF8

UniProt curated annotations — full annotation on UniProt →

Function. Likely to be involved with PKD1 in the detection, sequestration and exocytosis of senescent mitochondria.

Subunit / interactions. Homooligomer. Interacts with PKD1 (via the PKD repeats in the N-terminal extracellular region); the interaction is not dependent on N-glycosylation of either protein.

Subcellular location. Vesicle. Secreted. Extracellular exosome.

Tissue specificity. Detected in the kidney and in the endothelium of large blood vessels (at protein level).

Post-translational modifications. N-glycosylated.

Similarity. Belongs to the EPCIP family.

RefSeq proteins (3): NP_001155967, NP_001155968, NP_062542 (=MANE)

Domains & families (InterPro)

IDNameType
IPR029250ECPIPFamily

Pfam: PF15137

UniProt features (7 total): glycosylation site 5, signal peptide 1, chain 1

Structure

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9NYP8-F176.980.35

Human Protein Atlas

Protein class: Predicted secreted proteins, Predicted intracellular proteins, UniProt - Evidence at transcript level

Protein evidence: Evidence at protein level

Antibody reliability (HPA): IH enhanced

Functional residue map

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

Glycosylation sites (5)

TypePositions
N-linked (glcnac…) asparagine29, 42, 95, 188, 210

Function

Pathways and Gene Ontology

Reactome pathways

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

MSigDB gene sets: 93 (showing top): MODULE_255, MODULE_317, CAGCTG_AP4_Q5, BLALOCK_ALZHEIMERS_DISEASE_UP, MYOD_Q6, BROWN_MYELOID_CELL_DEVELOPMENT_DN, FREAC7_01, GOBP_MITOCHONDRION_LOCALIZATION, chr21q22, GOBP_ESTABLISHMENT_OF_MITOCHONDRION_LOCALIZATION, MODULE_95, GOBP_ORGANELLE_LOCALIZATION, GOBP_MITOCHONDRION_DISTRIBUTION, TGGAAA_NFAT_Q4_01, LEIN_CHOROID_PLEXUS_MARKERS

GO Biological Process (1): mitocytosis (GO:0160040)

GO Molecular Function (2): identical protein binding (GO:0042802), protein binding (GO:0005515)

GO Cellular Component (4): extracellular exosome (GO:0070062), migrasome (GO:0140494), extracellular region (GO:0005576), vesicle (GO:0031982)

GO top-level categories

9 GO namespaces:

CategoryTerms
mitochondrion distribution1
establishment of mitochondrion localization1
migracytosis1
protein binding1
binding1
extracellular vesicle1
intracellular membrane-bounded organelle1
cellular anatomical structure1
membrane-bounded organelle1

Experimentally-supported GO annotations

GO terms backed by direct experimental evidence (ECO experimental codes) — 4 of 7 annotations. The rest are phylogenetic / computational / electronic (IEA).

4 experimentally-supported GO terms:

GO termNSEvidence
mitocytosisBPdirect assay
extracellular exosomeCCdirect assay
migrasomeCCdirect assay
identical protein bindingMFphysical interaction

Protein interactions and networks

STRING

showing 15 of 528 interactions by confidence (×1000):

Protein AProtein BPartner UniProtScore
EPCIPC3orf22Q8N5N4470
EPCIPC12orf56Q8IXR9440
EPCIPSMIM17P0DL12436
EPCIPFAM149B1Q96BN6435
EPCIPC22orf42Q6IC83435
EPCIPITPRID2P28290430
EPCIPC22orf15Q8WYQ4420
EPCIPPTCD2Q8WV60420
EPCIPSH2D7A6NKC9408
EPCIPITGBL1O95965406
EPCIPFRRS1LQ9P0K9396
EPCIPC19orf18Q8NEA5390
EPCIPSPDYE4A6NLX3390
EPCIPCLPSL1A2RUU4390
EPCIPRNASE12Q5GAN4385

IntAct

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

1 partners by confidence:

PartnerInteraction typeMIscoreRecords
PKD1physical association0.4606

Disease & clinical

Genetic variants

Variant evidence for EPCIP: 13 ClinVar records (1 pathogenic / likely pathogenic); 1 GWAS association. Per-variant detail is on Sugi Variant.

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance4
Likely benign0
Benign0

Top pathogenic / likely-pathogenic (1)

Showing all 1 pathogenic / likely-pathogenic ClinVar records, ranked by ClinVar review status (expert panel → multiple submitters → single submitter), then by number of submitting labs.

Variant IDHGVSClassificationReviewSubmitters
1526709GRCh37/hg19 21q21.3-22.12(chr21:27185913-35853445)x1Pathogeniccriteria provided, single submitter1

Per-variant reference — Sugi Variant

Explore EPCIP’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; 17 predictions of 360):

Position(s)EffectΔscoreSites
21:32806568donor_gain0.9900
21:32813590–32813591donor_loss0.99003
21:32813590donor_loss0.9800
21:32813591donor_loss0.9700
21:32794364acceptor_gain0.9600
21:32794486–32794487acceptor_loss0.96006
21:32813590donor_gain0.9400
21:32813588donor_gain0.9300
21:32794488acceptor_loss0.9000
21:32808537donor_gain0.9000

HPA cancer prognostics

RNA cancer specificity: Group enriched (Glioblastoma Multiforme, Kidney Renal Papillary Cell Carcinoma)

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

1 prognostic cancer types:

CancerPrognosticp-value
Glioblastoma Multiforme (validation)unfavorable7.71e-06

Disease associations

OMIM: gene `` | disease phenotypes:

GWAS associations

1 associations:

StudyTraitp-value
GCST008832_12Gastroesophageal reflux disease3e-8

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (CPIC guideline: no)

CTD chemical–gene interactions

8 total (human), top 8 by PubMed support.

ChemicalActions (top 5)PubMed papers
propionaldehydedecreases expression1
arseniteincreases reaction, affects binding1
fipronilaffects cotreatment, decreases expression1
Benzo(a)pyreneaffects methylation, decreases methylation1
DEETaffects cotreatment, decreases expression1
Rotenonedecreases expression1
Silicon Dioxideincreases expression1
Tobacco Smoke Pollutiondecreases expression1

Clinical trials (associated diseases)

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

  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): gastroesophageal reflux disease