ZNHIT3
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Also known as Hit1
Summary
ZNHIT3 (zinc finger HIT-type containing 3, HGNC:12309) is a protein-coding gene on chromosome 17q12, encoding Zinc finger HIT domain-containing protein 3 (Q15649). It is a selective cancer dependency (DepMap: 72.6% of cell lines).
Predicted to enable nuclear thyroid hormone receptor binding activity. Predicted to be involved in box C/D snoRNP assembly; maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); and snoRNA localization. Located in cytoplasm and nucleus. Implicated in PEHO syndrome.
Source: NCBI Gene 9326 — RefSeq curated summary.
At a glance
- Gene–disease (curated): PEHO syndrome (Strong, GenCC) — +1 more curated relationship
- GWAS associations: 5
- Clinical variants (ClinVar): 55 total — 2 likely-pathogenic
- Phenotypes (HPO): 62
- Cancer dependency (DepMap): dependent in 72.6% of screened cell lines
- MANE Select transcript:
NM_004773
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:12309 |
| Approved symbol | ZNHIT3 |
| Name | zinc finger HIT-type containing 3 |
| Location | 17q12 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | Hit1 |
| Ensembl gene | ENSG00000273611 |
| Ensembl biotype | protein_coding |
| OMIM | 604500 |
| Entrez | 9326 |
Gene structure
Transcript identifiers
Ensembl transcripts: 13 — 7 protein_coding, 2 protein_coding_CDS_not_defined, 2 retained_intron, 2 nonsense_mediated_decay
ENST00000612494, ENST00000612728, ENST00000616269, ENST00000617429, ENST00000617922, ENST00000619446, ENST00000619482, ENST00000619730, ENST00000620324, ENST00000620863, ENST00000622013, ENST00000622312, ENST00000929428
RefSeq mRNA: 4 — MANE Select: NM_004773
NM_001281432, NM_001281433, NM_001281434, NM_004773
CCDS: CCDS11312, CCDS62156
Canonical transcript exons
ENST00000617429 — 5 exons
| Exon | Start | End |
|---|---|---|
| ENSE00003714420 | 36493926 | 36494006 |
| ENSE00003725838 | 36486681 | 36486785 |
| ENSE00003727390 | 36492813 | 36492899 |
| ENSE00003733302 | 36486935 | 36486966 |
| ENSE00003752212 | 36495223 | 36495822 |
Expression profiles
Bgee: expression breadth ubiquitous, 134 present calls, max score 95.98.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 34.6607 / max 250.4997, expressed in 1816 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 160423 | 31.5144 | 1816 |
| 160422 | 3.1352 | 1424 |
| 160424 | 0.0111 | 3 |
Top tissues by expression
134 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| cortical plate | UBERON:0005343 | 95.98 | gold quality |
| amygdala | UBERON:0001876 | 95.72 | gold quality |
| temporal lobe | UBERON:0001871 | 95.66 | gold quality |
| anterior cingulate cortex | UBERON:0009835 | 95.66 | gold quality |
| dorsolateral prefrontal cortex | UBERON:0009834 | 95.55 | gold quality |
| nucleus accumbens | UBERON:0001882 | 95.50 | gold quality |
| hypothalamus | UBERON:0001898 | 95.48 | gold quality |
| cerebral cortex | UBERON:0000956 | 95.26 | gold quality |
| Brodmann (1909) area 9 | UBERON:0013540 | 95.26 | gold quality |
| Ammon’s horn | UBERON:0001954 | 95.21 | gold quality |
| prefrontal cortex | UBERON:0000451 | 95.20 | gold quality |
| right testis | UBERON:0004534 | 95.19 | gold quality |
| right frontal lobe | UBERON:0002810 | 95.09 | gold quality |
| frontal cortex | UBERON:0001870 | 95.08 | gold quality |
| left testis | UBERON:0004533 | 95.07 | gold quality |
| substantia nigra | UBERON:0002038 | 95.06 | gold quality |
| ganglionic eminence | UBERON:0004023 | 94.93 | gold quality |
| caudate nucleus | UBERON:0001873 | 94.84 | gold quality |
| putamen | UBERON:0001874 | 94.84 | gold quality |
| brain | UBERON:0000955 | 94.73 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 94.64 | gold quality |
| islet of Langerhans | UBERON:0000006 | 94.61 | gold quality |
| cerebellar cortex | UBERON:0002129 | 94.61 | gold quality |
| cerebellum | UBERON:0002037 | 94.58 | gold quality |
| C1 segment of cervical spinal cord | UBERON:0006469 | 94.49 | gold quality |
| lymph node | UBERON:0000029 | 94.44 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 94.42 | gold quality |
| superior frontal gyrus | UBERON:0002661 | 94.29 | gold quality |
| testis | UBERON:0000473 | 94.27 | gold quality |
| muscle of leg | UBERON:0001383 | 94.20 | gold quality |
Single-cell (SCXA)
Detected in 2 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 3.31 |
| E-GEOD-100618 | no | 298.45 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): HNF4A, THRA
miRNA regulators (miRDB)
37 targeting ZNHIT3, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-4715-3P | 99.98 | 66.03 | 670 |
| HSA-MIR-548AB | 99.95 | 71.31 | 3488 |
| HSA-MIR-559 | 99.95 | 72.28 | 3609 |
| HSA-MIR-548A-5P | 99.94 | 71.27 | 3482 |
| HSA-MIR-548AD-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548AE-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548AK | 99.94 | 71.24 | 3488 |
| HSA-MIR-548AM-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548AP-5P | 99.94 | 71.14 | 3489 |
| HSA-MIR-548AQ-5P | 99.94 | 71.34 | 3426 |
| HSA-MIR-548AR-5P | 99.94 | 71.28 | 3515 |
| HSA-MIR-548AS-5P | 99.94 | 71.22 | 3482 |
| HSA-MIR-548AU-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548AY-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548B-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548BB-5P | 99.94 | 71.27 | 3509 |
| HSA-MIR-548C-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548D-5P | 99.94 | 71.23 | 3502 |
| HSA-MIR-548H-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548I | 99.94 | 71.25 | 3481 |
| HSA-MIR-548J-5P | 99.94 | 71.14 | 3489 |
| HSA-MIR-548O-5P | 99.94 | 71.24 | 3488 |
| HSA-MIR-548W | 99.94 | 71.24 | 3488 |
| HSA-MIR-548Y | 99.94 | 71.28 | 3514 |
| HSA-MIR-141-3P | 99.94 | 72.79 | 2421 |
| HSA-MIR-200A-3P | 99.94 | 72.68 | 2420 |
| HSA-LET-7A-2-3P | 99.87 | 70.53 | 1921 |
| HSA-LET-7G-3P | 99.85 | 70.43 | 1929 |
| HSA-MIR-106A-3P | 99.53 | 67.58 | 995 |
| HSA-MIR-6731-5P | 99.28 | 67.42 | 2375 |
Functional genomics
DepMap (CRISPR cell-line fitness): dependent in 72.6% of screened cell lines.
Literature-anchored findings (GeneRIF, showing 5)
- A high GYPC gene expression is associated with an unfavorable outcome, in contrast, a high TRIP3 gene expression is associated with a favorable outcome in childhood ALL. (PMID:19149918)
- Results identify TRIP3 as a novel regulator of PPARgamma-mediated adipocyte differentiation. (PMID:19596656)
- Results solve the structure of a complex resulting from interaction between protein fragments of human NUFIP1 and its cofactor ZNHIT3, and emphasize their imbrication. Also, it seems that the complexes involving NUFIP1, ZNHIT3, and SNU13 share strong structural similarities between human and yeast, suggesting that the initial steps of the box C/D snoRNP assembly process are conserved among species. (PMID:27594683)
- results suggest that loss-of-function missense mutation of znhit3 underlies PEHO syndrome. (PMID:28335020)
- Heterozygous ZNHIT3 variants within the 17q12 recurrent deletion region are associated with Mayer-Rokitansky-Kuster Hauser (MRKH) syndrome. (PMID:38599276)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | znhit3 | ENSDARG00000023950 |
| mus_musculus | Znhit3 | ENSMUSG00000020526 |
| drosophila_melanogaster | CG8204 | FBGN0034033 |
Protein
Protein identifiers
Zinc finger HIT domain-containing protein 3 — Q15649 (reviewed: Q15649)
Alternative names: HNF-4a coactivator, Thyroid hormone receptor interactor 3, Thyroid receptor-interacting protein 3
All UniProt accessions (7): Q15649, A0A087WTR0, A0A087WY42, A0A087WY54, A0A087WYI8, A0A087X045, A0A087X1G0
UniProt curated annotations — full annotation on UniProt →
Subunit / interactions. Thyroid receptor interacting proteins (TRIPs) specifically interact with the ligand binding domain of the thyroid receptor (TR). Requires the presence of thyroid hormone for its interaction. Interacts with NUFIP1. Interacts (via HIT-type zinc finger) with the RUVBL1/RUVBL2 complex in the presence of ADP.
Subcellular location. Cytoplasm. Nucleus.
Disease relevance. PEHO syndrome (PEHO) [MIM:260565] An autosomal recessive syndrome characterized by progressive encephalopathy, lack of psychomotor development, severe intellectual disability, early onset epileptic seizures, optic nerve/cerebellar atrophy, pedal edema, and early death. The disease is caused by variants affecting the gene represented in this entry.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| Q15649-1 | 1 | yes |
| Q15649-2 | 2 |
RefSeq proteins (4): NP_001268361, NP_001268362, NP_001268363, NP_004764* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR007529 | Znf_HIT | Domain |
| IPR048371 | ZNHIT3_C | Domain |
| IPR051639 | BCD1 | Family |
Pfam: PF04438, PF21373
UniProt features (25 total): binding site 8, helix 6, turn 4, strand 2, chain 1, zinc finger region 1, modified residue 1, splice variant 1, sequence variant 1
Structure
Experimental structures (PDB)
2 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 2YQQ | SOLUTION NMR | |
| 5L85 | SOLUTION NMR |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-Q15649-F1 | 74.73 | 0.28 |
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): 11; 14; 22; 25; 30; 34; 38; 42
Post-translational modifications (1): 80
Function
Pathways and Gene Ontology
Reactome pathways
0 pathways
MSigDB gene sets: 269 (showing top):
GSE45365_CD8A_DC_VS_CD11B_DC_IFNAR_KO_UP, GSE37336_LY6C_POS_VS_NEG_NAIVE_CD4_TCELL_UP, GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_UP, GOBP_RIBOSOME_BIOGENESIS, GCM_NPM1, CHIANG_LIVER_CANCER_SUBCLASS_UNANNOTATED_DN, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, PUJANA_CHEK2_PCC_NETWORK, GCM_PSME1, GCM_PPP1CC, GOBP_MATURATION_OF_LSU_RRNA, GOBP_PROTEIN_RNA_COMPLEX_ORGANIZATION, SANSOM_APC_TARGETS_DN, MARTINEZ_RESPONSE_TO_TRABECTEDIN_DN, MORF_AATF
GO Biological Process (3): maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (GO:0000463), box C/D snoRNP assembly (GO:0000492), regulation of DNA-templated transcription (GO:0006355)
GO Molecular Function (4): zinc ion binding (GO:0008270), nuclear thyroid hormone receptor binding (GO:0046966), protein binding (GO:0005515), metal ion binding (GO:0046872)
GO Cellular Component (3): nucleus (GO:0005634), cytoplasm (GO:0005737), pre-snoRNP complex (GO:0070761)
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| maturation of LSU-rRNA | 1 |
| small nucleolar ribonucleoprotein complex assembly | 1 |
| DNA-templated transcription | 1 |
| regulation of gene expression | 1 |
| regulation of RNA biosynthetic process | 1 |
| transition metal ion binding | 1 |
| nuclear receptor binding | 1 |
| binding | 1 |
| cation binding | 1 |
| intracellular membrane-bounded organelle | 1 |
| intracellular anatomical structure | 1 |
| cellular anatomical structure | 1 |
| ribonucleoprotein complex | 1 |
Protein interactions and networks
STRING
826 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| ZNHIT3 | NUFIP1 | Q9UHK0 | 971 |
| ZNHIT3 | ZNHIT6 | Q9NWK9 | 880 |
| ZNHIT3 | PIH1D1 | Q9NWS0 | 798 |
| ZNHIT3 | SNU13 | P55769 | 754 |
| ZNHIT3 | NOP58 | Q9Y2X3 | 731 |
| ZNHIT3 | ZNHIT2 | Q9UHR6 | 681 |
| ZNHIT3 | RPAP3 | Q9H6T3 | 670 |
| ZNHIT3 | GGNBP2 | Q9H3C7 | 662 |
| ZNHIT3 | TXNRD2 | Q9NNW7 | 649 |
| ZNHIT3 | RUVBL1 | P82276 | 648 |
| ZNHIT3 | MRM1 | Q6IN84 | 648 |
| ZNHIT3 | PIGW | Q7Z7B1 | 642 |
| ZNHIT3 | INO80B | Q9C086 | 626 |
| ZNHIT3 | TADA2A | O75478 | 612 |
| ZNHIT3 | MYO19 | Q96H55 | 601 |
IntAct
47 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| RUVBL1 | ZNHIT1 | psi-mi:“MI:0914”(association) | 0.860 |
| NUFIP1 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.840 |
| ZNHIT3 | NUFIP1 | psi-mi:“MI:0915”(physical association) | 0.840 |
| NUFIP1 | ZNHIT3 | psi-mi:“MI:0914”(association) | 0.840 |
| RUVBL1 | POLR3A | psi-mi:“MI:0914”(association) | 0.640 |
| ESR1 | TRIM24 | psi-mi:“MI:0914”(association) | 0.640 |
| ZNF324B | ZNF316 | psi-mi:“MI:0914”(association) | 0.530 |
| FBL | ZNF316 | psi-mi:“MI:0914”(association) | 0.530 |
| NUFIP1 | PDE2A | psi-mi:“MI:0914”(association) | 0.530 |
| Snu13 | psi-mi:“MI:0915”(physical association) | 0.400 | |
| MEIS2 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| PBX3 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| PITX2 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| XRCC3 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| ZNF24 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| FCMR | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| MBNL1 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| CSNK2A2 | ZNHIT3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| Snw1 | AKR7A2 | psi-mi:“MI:0914”(association) | 0.350 |
| CKAP5 | TACC3 | psi-mi:“MI:0914”(association) | 0.350 |
| Ruvbl1 | AAR2 | psi-mi:“MI:0914”(association) | 0.350 |
| LLGL2 | RBBP6 | psi-mi:“MI:0914”(association) | 0.350 |
| Ercc6l | RPL17 | psi-mi:“MI:0914”(association) | 0.350 |
| Erp44 | MEN1 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (78): ZNHIT3 (Affinity Capture-RNA), ZNHIT3 (Reconstituted Complex), ZNHIT3 (Protein-peptide), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), HECTD1 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-MS), ZNHIT3 (Affinity Capture-Western)
ESM2 similar proteins: A2YEZ6, A2Z2J6, A3BDI8, A3C039, A9YUB1, D4A4T9, O49663, O76080, O94880, Q09818, Q0VBD2, Q15649, Q28E45, Q29RL2, Q2KI09, Q3EA33, Q4R7U2, Q5EAW4, Q5RD91, Q5RHY1, Q5ZML4, Q67YE6, Q69LE0, Q6H754, Q6H7P8, Q6NNI8, Q6NUA0, Q6Z541, Q7L590, Q7Y1W9, Q84PD8, Q852K5, Q852K6, Q8H0X0, Q8VEE1, Q942F8, Q94B40, Q9D1P4, Q9D4H9, Q9ERV1
Diamond homologs: Q15649, Q2KIH1, Q6UIM1, Q6UIM2, Q9CQK1, O36031
SIGNOR signaling
0 interactions.
Disease & clinical
Clinical variants and AI predictions
ClinVar
55 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 0 |
| Likely pathogenic | 2 |
| Uncertain significance | 37 |
| Likely benign | 6 |
| Benign | 1 |
Top pathogenic / likely-pathogenic (2)
| Variant ID | HGVS | Classification |
|---|---|---|
| 3892944 | NM_004773.4(ZNHIT3):c.41G>T (p.Cys14Phe) | Likely pathogenic |
| 427725 | NM_004773.4(ZNHIT3):c.92C>T (p.Ser31Leu) | Likely pathogenic |
SpliceAI
916 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 17:36486780:GCCCT:G | donor_gain | 1.0000 |
| 17:36486786:G:GG | donor_gain | 1.0000 |
| 17:36486795:G:GT | donor_gain | 1.0000 |
| 17:36486795:G:T | donor_gain | 1.0000 |
| 17:36492898:AG:A | donor_loss | 1.0000 |
| 17:36492899:GGT:G | donor_loss | 1.0000 |
| 17:36492900:G:C | donor_loss | 1.0000 |
| 17:36492901:T:A | donor_loss | 1.0000 |
| 17:36493924:A:AG | acceptor_gain | 1.0000 |
| 17:36493925:G:GG | acceptor_gain | 1.0000 |
| 17:36493925:GAT:G | acceptor_gain | 1.0000 |
| 17:36494007:G:GG | donor_gain | 1.0000 |
| 17:36496405:CC:C | acceptor_gain | 1.0000 |
| 17:36496406:CC:C | acceptor_gain | 1.0000 |
| 17:36499069:A:AC | donor_gain | 1.0000 |
| 17:36499070:C:CC | donor_gain | 1.0000 |
| 17:36499073:A:AC | donor_gain | 1.0000 |
| 17:36499074:C:CC | donor_gain | 1.0000 |
| 17:36499074:CT:C | donor_gain | 1.0000 |
| 17:36499170:T:C | acceptor_gain | 1.0000 |
| 17:36499170:T:TC | acceptor_gain | 1.0000 |
| 17:36499175:C:CT | acceptor_gain | 1.0000 |
| 17:36499175:C:T | acceptor_gain | 1.0000 |
| 17:36499176:A:T | acceptor_gain | 1.0000 |
| 17:36499181:C:CT | acceptor_gain | 1.0000 |
| 17:36499182:A:T | acceptor_gain | 1.0000 |
| 17:36486794:G:GT | donor_gain | 0.9900 |
| 17:36486794:G:T | donor_gain | 0.9900 |
| 17:36486966:GGTG:G | donor_loss | 0.9900 |
| 17:36486967:G:GA | donor_loss | 0.9900 |
AlphaMissense
1024 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 17:36495342:T:C | F136L | 0.992 |
| 17:36495344:T:A | F136L | 0.992 |
| 17:36495344:T:G | F136L | 0.992 |
| 17:36495265:T:C | L110P | 0.991 |
| 17:36493995:T:C | L92S | 0.989 |
| 17:36495343:T:C | F136S | 0.989 |
| 17:36495363:T:C | C143R | 0.989 |
| 17:36495352:T:C | F139S | 0.988 |
| 17:36495354:G:C | A140P | 0.988 |
| 17:36486757:T:C | Y20H | 0.987 |
| 17:36486948:T:C | C34R | 0.987 |
| 17:36495250:T:C | L105S | 0.987 |
| 17:36495343:T:G | F136C | 0.987 |
| 17:36495365:T:G | C143W | 0.987 |
| 17:36486763:T:C | C22R | 0.986 |
| 17:36494004:T:C | L95S | 0.986 |
| 17:36495265:T:A | L110H | 0.985 |
| 17:36486730:T:C | C11R | 0.983 |
| 17:36486936:T:C | C30R | 0.982 |
| 17:36495329:G:A | M131I | 0.982 |
| 17:36495329:G:C | M131I | 0.982 |
| 17:36495329:G:T | M131I | 0.982 |
| 17:36495364:G:A | C143Y | 0.982 |
| 17:36495286:T:C | L117P | 0.980 |
| 17:36493980:T:A | V87D | 0.979 |
| 17:36495355:C:A | A140E | 0.978 |
| 17:36486948:T:A | C34S | 0.976 |
| 17:36486949:G:C | C34S | 0.976 |
| 17:36495238:T:C | L101S | 0.976 |
| 17:36486950:C:G | C34W | 0.974 |
dbSNP variants (sampled 300 via entrez): RS1000168740 (17:36499644 T>C,G), RS1000208710 (17:36495475 C>A,G), RS1000656577 (17:36487875 G>A), RS1000722858 (17:36494298 T>G), RS1000811517 (17:36489772 G>A), RS1001392305 (17:36499520 G>A), RS1001536012 (17:36487027 C>G,T), RS1001547696 (17:36493101 G>A,T), RS1001615175 (17:36494359 G>A), RS1001779823 (17:36498732 A>G), RS1001815301 (17:36488641 C>A,T), RS1002222894 (17:36497363 G>C), RS1002547566 (17:36491596 T>C), RS1003112327 (17:36487776 G>A), RS1003163959 (17:36491772 A>G)
Disease associations
OMIM: gene MIM:604500 | disease phenotypes: MIM:260565
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| PEHO syndrome | Strong | Autosomal recessive |
| Mayer-Rokitansky-Kuster-Hauser syndrome | Limited | Autosomal dominant |
Mondo (2): PEHO syndrome (MONDO:0009841), Mayer-Rokitansky-Kuster-Hauser syndrome (MONDO:0017771)
Orphanet (2): PEHO syndrome (Orphanet:2836), PEHO-like syndrome (Orphanet:99807)
HPO phenotypes
62 total (30 of 62 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000007 | Autosomal recessive inheritance |
| HP:0000174 | Abnormal palate morphology |
| HP:0000177 | Abnormal upper lip morphology |
| HP:0000194 | Open mouth |
| HP:0000212 | Gingival overgrowth |
| HP:0000238 | Hydrocephalus |
| HP:0000252 | Microcephaly |
| HP:0000253 | Progressive microcephaly |
| HP:0000272 | Malar flattening |
| HP:0000278 | Retrognathia |
| HP:0000286 | Epicanthus |
| HP:0000293 | Full cheeks |
| HP:0000341 | Narrow forehead |
| HP:0000377 | Abnormal pinna morphology |
| HP:0000400 | Macrotia |
| HP:0000463 | Anteverted nares |
| HP:0000496 | Abnormality of eye movement |
| HP:0000572 | Visual loss |
| HP:0000648 | Optic atrophy |
| HP:0000969 | Edema |
| HP:0001182 | Tapered finger |
| HP:0001250 | Seizure |
| HP:0001263 | Global developmental delay |
| HP:0001272 | Cerebellar atrophy |
| HP:0001290 | Generalized hypotonia |
| HP:0001302 | Pachygyria |
| HP:0001336 | Myoclonus |
| HP:0001347 | Hyperreflexia |
| HP:0001371 | Flexion contracture |
| HP:0001376 | Limitation of joint mobility |
GWAS associations
5 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST004621_191 | Red cell distribution width | 4.000000e-13 |
| GCST005951_15 | Body mass index | 3.000000e-13 |
| GCST006804_73 | Red cell distribution width | 3.000000e-11 |
| GCST009597_36 | Multiple sclerosis | 1.000000e-15 |
| GCST90002404_160 | Red cell distribution width | 1.000000e-26 |
EFO canonical traits (2, from GWAS)
| EFO ID | Trait name |
|---|---|
| EFO:0009188 | Red cell distribution width |
| EFO:0004340 | body mass index |
MeSH disease descriptors (1)
| Descriptor | Name | Tree numbers |
|---|---|---|
| C536317 | PEHO syndrome (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: no
PharmGKB: 1 entry (VIP=true, CPIC=false)
CTD chemical–gene interactions
22 total (human), top 22 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Estradiol | affects binding, increases reaction | 2 |
| Cadmium Chloride | increases abundance, increases expression | 2 |
| FR900359 | decreases phosphorylation | 1 |
| bisphenol F | affects cotreatment, increases expression | 1 |
| dicrotophos | decreases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| bisphenol A | affects binding, affects folding, increases reaction | 1 |
| di-n-butylphosphoric acid | affects expression | 1 |
| bisphenol AF | affects binding, affects folding, increases reaction | 1 |
| Arsenic | affects methylation | 1 |
| Benzo(a)pyrene | affects methylation | 1 |
| Cadmium | increases abundance, increases expression | 1 |
| Carbamazepine | affects expression | 1 |
| Dexamethasone | affects cotreatment, increases expression | 1 |
| Indomethacin | affects cotreatment, increases expression | 1 |
| Methyl Methanesulfonate | increases expression | 1 |
| Valproic Acid | affects expression | 1 |
| Vanadates | decreases expression | 1 |
| 1-Methyl-3-isobutylxanthine | affects cotreatment, increases expression | 1 |
| Metribolone | affects binding, affects folding, decreases reaction | 1 |
| Sodium Selenite | increases expression | 1 |
| Copper Sulfate | decreases expression | 1 |
Clinical trials (associated diseases)
14 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT03277430 | PHASE3 | UNKNOWN | Uterus Transplantation From Live Donors and From Deceased Donors - Clinical Study |
| NCT01911884 | Not specified | COMPLETED | Assessment of Quality of Global and Sexual Life and Impact of Surgical and Non Surgical Vaginal Aplasia in Patients With a Rokitansky Syndrome |
| NCT02967822 | Not specified | RECRUITING | Molecular Genetic Study of Mayer-Rokitansky-Kuster-Hauser Syndrome |
| NCT03252795 | Not specified | RECRUITING | Uterus Transplantation From a Multi-organ Donor |
| NCT03307356 | Not specified | ACTIVE_NOT_RECRUITING | The University of Pennsylvania Uterus Transplant for Uterine Factor Infertility Trial |
| NCT03689842 | Not specified | RECRUITING | Feasibility Study of Uterine Transplantation From Living Donors in Terms of Efficacy and Safety in Patients With Mayer-Rokitansky-Küster-Hauser Syndrome (MRKH) |
| NCT04314869 | Not specified | UNKNOWN | Uterus Transplantation Procedure From a Live Donor |
| NCT04923217 | Not specified | COMPLETED | Quality of Life and Sexual Function in Vaginal Aplasia Patients After Davydov Procedure |
| NCT05263076 | Not specified | RECRUITING | Uterine Transplant for Women With Absolute Uterine Factor Infertility (AUFI) |
| NCT05415540 | Not specified | COMPLETED | Evolution of the Quality of Life and Experience of Young Women With Utero-vaginal Aplasia (MRKHPSY) |
| NCT05925361 | Not specified | UNKNOWN | Peritoneum Vaginoplasty; Implementation According to IDEAL Framework |
| NCT06508151 | Not specified | NOT_YET_RECRUITING | Neovaginoplasty Using Photoinduced-imine-crosslink Hydrogel in MRKH Patients |
| NCT07186764 | Not specified | RECRUITING | Evaluation of the Quality of Life and Gynecological Follow-up of Patients Treated for Mayer-Rokitansky-Küster-Hauser (MRKH) Syndrome |
| NCT07321782 | Not specified | NOT_YET_RECRUITING | Clinical and Imaging Features in MRKH Syndrome |
Related Atlas pages
- Associated diseases: Mayer-Rokitansky-Kuster-Hauser syndrome, PEHO syndrome
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): Mayer-Rokitansky-Kuster-Hauser syndrome, multiple sclerosis, PEHO syndrome