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ZNF107

gene
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Also known as ZFD25smap-7

Summary

ZNF107 (zinc finger protein 107, HGNC:12887) is a protein-coding gene on chromosome 7q11.21, encoding Zinc finger protein 107 (Q9UII5). May be involved in transcriptional regulation.

This gene encodes a protein containing multiple C2H2-type zinc finger regions. Proteins containing zinc fingers may act as transcriptional regulators, but may also have other cellular functions. Alternative splicing results in multiple transcript variants.

Source: NCBI Gene 51427 — RefSeq curated summary.

At a glance

  • GWAS associations: 2
  • Clinical variants (ClinVar): 129 total
  • MANE Select transcript: NM_001282359

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:12887
Approved symbolZNF107
Namezinc finger protein 107
Location7q11.21
Locus typegene with protein product
StatusApproved
AliasesZFD25, smap-7
Ensembl geneENSG00000196247
Ensembl biotypeprotein_coding
OMIM603989
Entrez51427

Gene structure

Transcript identifiers

Ensembl transcripts: 14 — 7 protein_coding_CDS_not_defined, 5 protein_coding, 2 nonsense_mediated_decay

ENST00000344930, ENST00000360117, ENST00000395391, ENST00000423627, ENST00000613690, ENST00000620827, ENST00000682671, ENST00000683053, ENST00000683492, ENST00000683656, ENST00000683971, ENST00000684016, ENST00000684494, ENST00000929762

RefSeq mRNA: 6 — MANE Select: NM_001282359 NM_001013746, NM_001282359, NM_001282360, NM_001388025, NM_001388026, NM_016220

CCDS: CCDS5527, CCDS75605, CCDS75606

Canonical transcript exons

ENST00000620827 — 4 exons

ExonStartEnd
ENSE000013917596470632464711577
ENSE000037224426469186564691960
ENSE000037310446469124864691374
ENSE000039206236466613364666285

Expression profiles

Bgee: expression breadth ubiquitous, 253 present calls, max score 84.83.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 13.9417 / max 380.5209, expressed in 1638 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
7881010.38421582
788113.3473896
788090.210290

Top tissues by expression

278 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
secondary oocyteCL:000065584.83gold quality
oocyteCL:000002384.68gold quality
lymph nodeUBERON:000002982.78gold quality
ventricular zoneUBERON:000305381.58gold quality
tonsilUBERON:000237280.92gold quality
male germ line stem cell (sensu Vertebrata) in testisCL:0000089 ∩ UBERON:000047380.84gold quality
buccal mucosa cellCL:000233680.47gold quality
ganglionic eminenceUBERON:000402380.42gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099180.28gold quality
adrenal tissueUBERON:001830380.09gold quality
upper leg skinUBERON:000426279.84gold quality
epithelium of nasopharynxUBERON:000195179.23gold quality
vermiform appendixUBERON:000115479.07gold quality
tibiaUBERON:000097978.23gold quality
palpebral conjunctivaUBERON:000181277.60gold quality
tendon of biceps brachiiUBERON:000818876.86gold quality
spleenUBERON:000210676.68gold quality
bloodUBERON:000017876.51gold quality
epithelium of mammary glandUBERON:000324476.51gold quality
mammary ductUBERON:000176576.28gold quality
caecumUBERON:000115376.21gold quality
gingival epitheliumUBERON:000194976.17gold quality
calcaneal tendonUBERON:000370175.99gold quality
bone marrowUBERON:000237175.92gold quality
tendonUBERON:000004375.88gold quality
endometriumUBERON:000129575.71gold quality
embryoUBERON:000092275.66gold quality
bone marrow cellCL:000209275.56gold quality
granulocyteCL:000009475.21gold quality
mammary glandUBERON:000191175.01gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-MTAB-7037yes122.22
E-ANND-3no0.00

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): STAT1

miRNA regulators (miRDB)

156 targeting ZNF107, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3925-3P100.0069.951237
HSA-MIR-3064-3P100.0070.091254
HSA-MIR-4768-5P100.0069.492861
HSA-MIR-6833-3P100.0070.633197
HSA-MIR-6873-3P100.0071.422626
HSA-MIR-656-3P100.0072.152788
HSA-MIR-3163100.0077.238605
HSA-MIR-5692A100.0074.406850
HSA-MIR-1212199.9966.64255
HSA-MIR-511-3P99.9968.851467
HSA-MIR-428299.9975.366408
HSA-MIR-548AW99.9972.573559
HSA-MIR-186-5P99.9970.833707
HSA-MIR-4789-3P99.9970.752484
HSA-MIR-366299.9973.825684
HSA-MIR-477599.9875.006394
HSA-MIR-548P99.9872.253784
HSA-MIR-4715-3P99.9866.03670
HSA-MIR-548N99.9871.944170
HSA-MIR-4789-5P99.9870.762721
HSA-MIR-1213699.9872.815713
HSA-MIR-1229-3P99.9766.49906
HSA-MIR-548AN99.9770.912817
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-590-3P99.9674.346478
HSA-MIR-3605-5P99.9667.12932
HSA-MIR-6778-3P99.9667.292693
HSA-MIR-23A-3P99.9574.243163
HSA-MIR-23B-3P99.9574.243163
HSA-MIR-23C99.9573.923192

Cross-species orthologs

30 orthologs

OrganismSymbolGene ID
danio_rerioznf646ENSDARG00000061424
danio_reriosi:dkey-154p10.3ENSDARG00000068366
danio_reriosi:dkey-89b17.4ENSDARG00000075545
danio_reriozgc:66472ENSDARG00000075916
danio_reriosi:ch211-148l7.4ENSDARG00000094469
danio_rerioznf576.1ENSDARG00000097819
drosophila_melanogasterSry-deltaFBGN0003512
drosophila_melanogasteraz2FBGN0025185
drosophila_melanogasterhangFBGN0026575
drosophila_melanogasterCG3032FBGN0029928
drosophila_melanogasterCG2129FBGN0030008
drosophila_melanogasterCG11695FBGN0030316
drosophila_melanogasterCG8944FBGN0030680
drosophila_melanogasterCG7101FBGN0030963
drosophila_melanogasterCG1602FBGN0033186
drosophila_melanogasterCG18011FBGN0033491
drosophila_melanogasterCG12942FBGN0033569
drosophila_melanogasterCG8089FBGN0033993
drosophila_melanogasterindraFBGN0035213
drosophila_melanogasterCG10654FBGN0036294
drosophila_melanogasterCG6791FBGN0037918
drosophila_melanogasterCG17803FBGN0038547
drosophila_melanogasterCG12219FBGN0043796
drosophila_melanogasterCG30020FBGN0050020
drosophila_melanogasterpzgFBGN0259785
drosophila_melanogastermldFBGN0263490
drosophila_melanogasterzf30CFBGN0270924
caenorhabditis_elegansztf-15WBGENE00011066
caenorhabditis_elegansWBGENE00013734
caenorhabditis_elegansWBGENE00015649

Paralogs (36): ZNF302 (ENSG00000089335), ZNF184 (ENSG00000096654), CTCF (ENSG00000102974), ZNF574 (ENSG00000105732), ZBTB24 (ENSG00000112365), ZNF142 (ENSG00000115568), CTCFL (ENSG00000124092), ZNF473 (ENSG00000142528), ZNF827 (ENSG00000151612), ZNF689 (ENSG00000156853), ZNF208 (ENSG00000160321), ZNF91 (ENSG00000167232), ZNF526 (ENSG00000167625), ZNF764 (ENSG00000169951), ZNF747 (ENSG00000169955), ZNF282 (ENSG00000170265), ZNF160 (ENSG00000170949), ZNF497 (ENSG00000174586), ZBTB34 (ENSG00000177125), ZNF771 (ENSG00000179965), ZNF48 (ENSG00000180035), ZNF594 (ENSG00000180626), ZBTB37 (ENSG00000185278), ZFP92 (ENSG00000189420), ZNF729 (ENSG00000196350), ZNF569 (ENSG00000196437), ZNF420 (ENSG00000197050), ZNF785 (ENSG00000197162), ZNF665 (ENSG00000197497), ZNF181 (ENSG00000197841), ZNF347 (ENSG00000197937), ZNF84 (ENSG00000198040), ZBTB48 (ENSG00000204859), ZNF845 (ENSG00000213799), ZNF99 (ENSG00000213973), ZNF688 (ENSG00000229809)

Protein

Protein identifiers

Zinc finger protein 107 — Q9UII5 (reviewed: Q9UII5)

Alternative names: Zinc finger protein 588, Zinc finger protein ZFD25

All UniProt accessions (5): Q9UII5, A0A087WYK5, A0A0B4J2G0, A0A8C8KK49, C9JSF9

UniProt curated annotations — full annotation on UniProt →

Function. May be involved in transcriptional regulation.

Subcellular location. Nucleus.

Tissue specificity. Expressed in brain, heart, skeletal muscle, kidney and pancreas. Weakly expressed in aorta, liver and lung.

Similarity. Belongs to the krueppel C2H2-type zinc-finger protein family.

RefSeq proteins (6): NP_001013768, NP_001269288, NP_001269289, NP_001374954, NP_001374955, NP_057304 (=MANE)

Domains & families (InterPro)

IDNameType
IPR013087Znf_C2H2_typeDomain
IPR036236Znf_C2H2_sfHomologous_superfamily
IPR050331Zinc_finger_PRDM4/PRDM1/PRDM14Family

Pfam: PF00096

UniProt features (27 total): zinc finger region 25, chain 1, cross-link 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9UII5-F174.230.03

Functional residue map

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

Post-translational modifications (1): 186

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 125 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_MCMV_INFECTION_UP, GSE18804_SPLEEN_MACROPHAGE_VS_BRAIN_TUMORAL_MACROPHAGE_UP, GSE18804_SPLEEN_MACROPHAGE_VS_TUMORAL_MACROPHAGE_UP, MODULE_255, MODULE_317, FISCHER_DREAM_TARGETS, chr7q11, CHEN_HOXA5_TARGETS_9HR_UP, HAMAI_APOPTOSIS_VIA_TRAIL_UP, GOMF_SEQUENCE_SPECIFIC_DNA_BINDING, TOYOTA_TARGETS_OF_MIR34B_AND_MIR34C, GOBP_NEGATIVE_REGULATION_OF_TRANSCRIPTION_BY_RNA_POLYMERASE_II, GOBP_NEGATIVE_REGULATION_OF_NUCLEOBASE_CONTAINING_COMPOUND_METABOLIC_PROCESS, ZWANG_DOWN_BY_2ND_EGF_PULSE, EGFR_UP.V1_DN

GO Biological Process (3): negative regulation of transcription by RNA polymerase II (GO:0000122), regulation of transcription by RNA polymerase II (GO:0006357), regulation of DNA-templated transcription (GO:0006355)

GO Molecular Function (4): DNA binding (GO:0003677), zinc ion binding (GO:0008270), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (1): nucleus (GO:0005634)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
transcription by RNA polymerase II2
regulation of transcription by RNA polymerase II1
negative regulation of DNA-templated transcription1
regulation of DNA-templated transcription1
DNA-templated transcription1
regulation of gene expression1
regulation of RNA biosynthetic process1
nucleic acid binding1
transition metal ion binding1
binding1
cation binding1
intracellular membrane-bounded organelle1

Protein interactions and networks

STRING

0 interactions, top by confidence (×1000):

IntAct

36 interactions, top by confidence:

ABTypeScore
HOOK2ZNF107psi-mi:“MI:0915”(physical association)0.560
KRTAP10-8ZNF107psi-mi:“MI:0915”(physical association)0.560
U2AF2ZNF107psi-mi:“MI:0915”(physical association)0.560
ZNF324BZNF316psi-mi:“MI:0914”(association)0.530
ECE1ZNF107psi-mi:“MI:0915”(physical association)0.370
HIPK3ZNF107psi-mi:“MI:0915”(physical association)0.370
SMAD7ZNF107psi-mi:“MI:0915”(physical association)0.370
APPZNF724psi-mi:“MI:0914”(association)0.350
CDX1ZNF724psi-mi:“MI:0914”(association)0.350
PURGZNF320psi-mi:“MI:0914”(association)0.350
ZNF467ZNF320psi-mi:“MI:0914”(association)0.350
NOP2ZNF320psi-mi:“MI:0914”(association)0.350
NOTCH2ZNF320psi-mi:“MI:0914”(association)0.350
LTBP2ZNF320psi-mi:“MI:0914”(association)0.350
ANKRD36BCCDC66psi-mi:“MI:0914”(association)0.350
RPL36GTPBP10psi-mi:“MI:0914”(association)0.350
ILF3GTPBP10psi-mi:“MI:0914”(association)0.350
RPL13AGTPBP10psi-mi:“MI:0914”(association)0.350
ABT1GTPBP10psi-mi:“MI:0914”(association)0.350
GLI4ZNF316psi-mi:“MI:0914”(association)0.350
CBX6ZNF316psi-mi:“MI:0914”(association)0.350
ANOS1ZNF724psi-mi:“MI:0914”(association)0.350
RPL4POLRMTpsi-mi:“MI:0914”(association)0.350
RPL23AMPHOSPH10psi-mi:“MI:0914”(association)0.350
CUL9NVLpsi-mi:“MI:0914”(association)0.350
KLF16SMCHD1psi-mi:“MI:2364”(proximity)0.270

BioGRID (36): ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-RNA), ZNF107 (Two-hybrid), ZNF107 (Two-hybrid), ZNF107 (Two-hybrid), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS), ZNF107 (Affinity Capture-MS)

ESM2 similar proteins: A2VDQ7, A6NK75, A6NN14, A6NNF4, A8MQ14, A8MTY0, A8MXY4, B7Z6K7, E9QAG8, O43345, O75290, O75373, O75437, P0CJ79, P10751, P17017, P17019, P17035, P17038, P18749, P35789, P51522, Q03923, Q03938, Q05481, Q14585, Q3SYV7, Q4V348, Q5R5U3, Q5R8X1, Q5R9F0, Q5SXM1, Q6P5C7, Q6ZN08, Q6ZN57, Q6ZR52, Q86V71, Q86XN6, Q8IYB9, Q8N7Q3

Diamond homologs: A0A1W2PQL4, A6NK75, A6NN14, A6NNF4, A6NP11, A8MQ14, A8MTY0, A8MUV8, A8MXY4, B4DX44, B4DXR9, E9PYI1, O14628, O43345, O75290, O75346, O75373, O75437, O95780, P0CB33, P0DKX0, P0DPD5, P16373, P17019, P17038, P21506, P35789, P52736, P52738, P52744, Q03923, Q03924, Q03936, Q03938, Q05481, Q14586, Q14593, Q14929, Q15928, Q3KNS6

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 35 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
Major pathway of rRNA processing in the nucleolus and cytosol513.4×7e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance97
Likely benign13
Benign7

Top pathogenic / likely-pathogenic (0)

SpliceAI

968 predictions. Top by Δscore:

VariantEffectΔscore
7:64666251:C:Gdonor_gain1.0000
7:64691242:TTTCA:Tacceptor_loss1.0000
7:64691243:TTCA:Tacceptor_loss1.0000
7:64691244:TCAGG:Tacceptor_loss1.0000
7:64691245:CAG:Cacceptor_loss1.0000
7:64691246:A:AGacceptor_gain1.0000
7:64691246:AG:Aacceptor_gain1.0000
7:64691247:G:GAacceptor_gain1.0000
7:64691247:GG:Gacceptor_gain1.0000
7:64691247:GGA:Gacceptor_gain1.0000
7:64691334:G:GTdonor_gain1.0000
7:64691335:A:Tdonor_gain1.0000
7:64706322:A:AGacceptor_gain1.0000
7:64706323:G:GGacceptor_gain1.0000
7:64666286:GT:Gdonor_loss0.9900
7:64666287:T:Gdonor_loss0.9900
7:64679176:GACT:Gacceptor_gain0.9900
7:64691247:GGAA:Gacceptor_gain0.9900
7:64691247:GGAAC:Gacceptor_gain0.9900
7:64691373:GG:Gdonor_gain0.9900
7:64691374:GG:Gdonor_gain0.9900
7:64691374:GGTGA:Gdonor_loss0.9900
7:64691375:G:GAdonor_loss0.9900
7:64691375:G:GGdonor_gain0.9900
7:64691376:T:Gdonor_loss0.9900
7:64706323:GTA:Gacceptor_gain0.9900
7:64706323:GTAAT:Gacceptor_gain0.9900
7:64666286:G:GGdonor_gain0.9800
7:64666289:A:Tdonor_gain0.9800
7:64679170:A:AGacceptor_gain0.9800

AlphaMissense

5677 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
7:64708321:T:CF673L0.983
7:64708323:T:AF673L0.983
7:64708323:T:GF673L0.983
7:64708237:T:CF645L0.982
7:64708239:T:AF645L0.982
7:64708239:T:GF645L0.982
7:64707649:T:CF449L0.981
7:64707651:T:AF449L0.981
7:64707651:T:GF449L0.981
7:64708405:T:CF701L0.977
7:64708407:T:AF701L0.977
7:64708407:T:GF701L0.977
7:64708424:T:CL707P0.971
7:64708489:T:CF729L0.969
7:64708491:T:AF729L0.969
7:64708491:T:GF729L0.969
7:64707733:T:CF477L0.966
7:64707735:T:AF477L0.966
7:64707735:T:GF477L0.966
7:64707565:T:CF421L0.962
7:64707567:T:AF421L0.962
7:64707567:T:GF421L0.962
7:64707397:T:CF365L0.961
7:64707399:T:AF365L0.961
7:64707399:T:GF365L0.961
7:64707817:T:CF505L0.960
7:64707819:T:AF505L0.960
7:64707819:T:GF505L0.960
7:64708256:T:CL651P0.950
7:64707668:T:CL455P0.945

dbSNP variants (sampled 300 via entrez): RS1000051627 (7:64665365 T>A,G), RS1000055405 (7:64686110 C>T), RS1000068088 (7:64668305 C>G,T), RS1000068303 (7:64700130 A>G), RS1000068714 (7:64708543 C>A,T), RS1000085065 (7:64701897 A>G), RS1000296008 (7:64674976 C>CTT), RS1000426374 (7:64681514 C>T), RS1000483093 (7:64689466 A>T), RS1000542270 (7:64678456 T>A), RS1000610686 (7:64701512 A>G), RS1000659624 (7:64684687 C>T), RS1000661643 (7:64701726 C>G), RS1000698971 (7:64690738 C>T), RS1000727373 (7:64688438 G>A,T)

Disease associations

OMIM: gene MIM:603989 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

2 associations (top):

StudyTraitp-value
GCST009391_1117Metabolite levels7.000000e-07
GCST011954_3White matter hyperintensity volume x hypertension interaction (2df)2.000000e-08

EFO canonical traits (2, from GWAS)

EFO IDTrait name
EFO:0010523phosphoglyceric acid measurement
EFO:0005665white matter hyperintensity measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

25 total (human), top 25 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, decreases expression2
TAK-243increases sumoylation1
triphenyl phosphateaffects expression1
2-butenaldecreases expression1
beta-lapachonedecreases expression1
tris(1,3-dichloro-2-propyl)phosphatedecreases expression1
avobenzonedecreases expression1
di-n-butylphosphoric acidaffects expression1
abrinedecreases expression1
jinfukangdecreases expression1
Arsenic Trioxideincreases response to substance1
Benzo(a)pyreneincreases expression1
Cadmiumdecreases expression1
Calcitriolincreases expression1
Cisplatindecreases expression1
Ethyl Methanesulfonateincreases expression1
Formaldehydedecreases expression1
Leadaffects expression1
Methyl Methanesulfonateincreases expression1
Silicon Dioxidedecreases expression1
Tobacco Smoke Pollutiondecreases expression1
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxidedecreases expression1
Cyclosporinedecreases expression1
Okadaic Acidincreases expression1
Copper Sulfateincreases expression1

Clinical trials (associated diseases)

0 trials 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): hypertensive disorder

About this page

Generated deterministically by Sugi Atlas from primary biomedical databases via BioBTree. Every record on this page traces to a primary source.

Generated
Atlas version
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BioBTree
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Sources 74

This page pulls from 74 datasets indexed by BioBTree:

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