TRIP12

gene
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Also known as KIAA0045ULFTRIPC

Summary

TRIP12 (thyroid hormone receptor interactor 12, HGNC:12306) is a protein-coding gene on chromosome 2q36.3, encoding E3 ubiquitin-protein ligase TRIP12 (Q14669). E3 ubiquitin-protein ligase involved in ubiquitin fusion degradation (UFD) pathway and regulation of DNA repair. It is haploinsufficient (ClinGen: sufficient evidence).

The protein encoded by this gene is an E3 ubiquitin-protein ligase involved in the degradation of the p19ARF/ARF isoform of CDKN2A, a tumor suppressor. The encoded protein also plays a role in the DNA damage response by regulating the stability of USP7, which regulates tumor suppressor p53.

Source: NCBI Gene 9320 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): complex neurodevelopmental disorder (Definitive, ClinGen) — +2 more curated relationships
  • GWAS associations: 8
  • Clinical variants (ClinVar): 703 total — 64 pathogenic, 33 likely-pathogenic
  • Phenotypes (HPO): 38
  • Dosage sensitivity (ClinGen): haploinsufficiency sufficient evidence, triplosensitivity no evidence
  • MANE Select transcript: NM_001348323

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:12306
Approved symbolTRIP12
Namethyroid hormone receptor interactor 12
Location2q36.3
Locus typegene with protein product
StatusApproved
AliasesKIAA0045, ULF, TRIPC
Ensembl geneENSG00000153827
Ensembl biotypeprotein_coding
OMIM604506
Entrez9320

Gene structure

Transcript identifiers

Ensembl transcripts: 86 — 75 protein_coding, 8 retained_intron, 3 nonsense_mediated_decay

ENST00000283943, ENST00000343290, ENST00000389044, ENST00000389045, ENST00000409677, ENST00000418123, ENST00000428959, ENST00000430954, ENST00000435716, ENST00000453485, ENST00000459841, ENST00000461189, ENST00000470302, ENST00000477441, ENST00000479037, ENST00000487178, ENST00000495322, ENST00000675423, ENST00000675453, ENST00000675903, ENST00000704577, ENST00000704578, ENST00000704579, ENST00000704580, ENST00000704581, ENST00000704582, ENST00000704583, ENST00000704584, ENST00000704585, ENST00000704586, ENST00000855111, ENST00000855112, ENST00000855113, ENST00000855114, ENST00000855115, ENST00000855116, ENST00000855117, ENST00000855118, ENST00000855119, ENST00000855120, ENST00000855121, ENST00000855122, ENST00000855123, ENST00000855124, ENST00000855125, ENST00000932274, ENST00000932275, ENST00000932276, ENST00000932277, ENST00000932278, ENST00000932279, ENST00000932280, ENST00000932281, ENST00000932282, ENST00000932283, ENST00000932284, ENST00000932285, ENST00000932286, ENST00000932287, ENST00000932288, ENST00000932289, ENST00000932290, ENST00000932291, ENST00000932292, ENST00000932293, ENST00000932294, ENST00000960281, ENST00000960282, ENST00000960283, ENST00000960284, ENST00000960285, ENST00000960286, ENST00000960287, ENST00000960288, ENST00000960289, ENST00000960290, ENST00000960291, ENST00000960292, ENST00000960293, ENST00000960294, ENST00000960295, ENST00000960296, ENST00000960297, ENST00000960298, ENST00000960299, ENST00000960300

RefSeq mRNA: 26 — MANE Select: NM_001348323 NM_001284214, NM_001284215, NM_001284216, NM_001348315, NM_001348316, NM_001348317, NM_001348318, NM_001348319, NM_001348320, NM_001348321, NM_001348322, NM_001348323, NM_001348324, NM_001348325, NM_001348326, NM_001348327, NM_001348328, NM_001348329, NM_001348330, NM_001348331, NM_001348332, NM_001348333, NM_001348334, NM_001348335, NM_001348336, NM_004238

CCDS: CCDS33391, CCDS63145, CCDS63146, CCDS92961, CCDS92962, CCDS92963, CCDS92964, CCDS92965, CCDS92966

Canonical transcript exons

ENST00000675903 — 42 exons

ExonStartEnd
ENSE00001012584229778876229778990
ENSE00001012586229778433229778587
ENSE00001012589229771519229771632
ENSE00001012590229774097229774261
ENSE00001012597229796591229796782
ENSE00001012598229799283229799383
ENSE00001012601229787505229787661
ENSE00001012602229807708229807864
ENSE00001012603229769231229769325
ENSE00001012608229792973229793145
ENSE00001012609229795179229795330
ENSE00001012611229802252229802459
ENSE00001155807229789611229789762
ENSE00001504758229791124229791251
ENSE00001504759229791866229792065
ENSE00001510539229805730229805883
ENSE00001510547229860406229860531
ENSE00001940595229921880229922009
ENSE00002228607229788798229788940
ENSE00002310311229785757229785855
ENSE00003460176229879982229880128
ENSE00003462555229815273229815308
ENSE00003473249229808252229808369
ENSE00003515596229815099229815194
ENSE00003523632229803571229803689
ENSE00003549126229830756229830839
ENSE00003556213229777315229777479
ENSE00003557124229811136229811204
ENSE00003579098229814233229814325
ENSE00003579916229798875229799049
ENSE00003585414229858772229859574
ENSE00003588386229840822229840927
ENSE00003591306229803999229804227
ENSE00003592677229797690229797831
ENSE00003597698229829193229829288
ENSE00003609432229792153229792226
ENSE00003635736229813870229814031
ENSE00003652845229836848229836984
ENSE00003666375229810880229811045
ENSE00003679901229818364229818512
ENSE00003786613229768616229768719
ENSE00003899161229763837229767750

Expression profiles

Bgee: expression breadth ubiquitous, 302 present calls, max score 98.87.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 49.2628 / max 332.6233, expressed in 1817 samples.

FANTOM5 promoters (10 alternative TSS)

Promoter IDTPM avgSamples expressed
3443121.89371808
3442914.58901769
344353.38821352
344322.99031496
344281.6502784
344301.6270989
344361.5181883
344331.3394885
344340.193561
344270.073522

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
calcaneal tendonUBERON:000370198.87gold quality
male germ cellCL:000001598.71gold quality
spermCL:000001998.69gold quality
colonic epitheliumUBERON:000039798.54gold quality
sural nerveUBERON:001548897.90gold quality
adrenal tissueUBERON:001830397.86gold quality
left testisUBERON:000453397.82gold quality
right testisUBERON:000453497.80gold quality
amniotic fluidUBERON:000017397.51gold quality
stromal cell of endometriumCL:000225597.44gold quality
testisUBERON:000047397.43gold quality
tendonUBERON:000004397.40gold quality
tonsilUBERON:000237297.26gold quality
gluteal muscleUBERON:000200096.73gold quality
trabecular bone tissueUBERON:000248396.66gold quality
bone marrow cellCL:000209296.63gold quality
olfactory bulbUBERON:000226496.60gold quality
ganglionic eminenceUBERON:000402396.60gold quality
adult organismUBERON:000702396.58gold quality
cartilage tissueUBERON:000241896.55gold quality
esophagus squamous epitheliumUBERON:000692096.34gold quality
ventricular zoneUBERON:000305396.32gold quality
corpus callosumUBERON:000233696.18gold quality
corpus epididymisUBERON:000435996.18gold quality
tongue squamous epitheliumUBERON:000691996.14gold quality
islet of LangerhansUBERON:000000696.10gold quality
oral cavityUBERON:000016796.09gold quality
epithelium of esophagusUBERON:000197696.08gold quality
gastrocnemiusUBERON:000138895.99gold quality
type B pancreatic cellCL:000016995.90gold quality

Single-cell (SCXA)

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

ExperimentMarker?Max mean expression
E-ANND-3yes9.44

Regulation

Is transcription factor: no

Upstream regulators (CollecTRI, top): HNF1B

miRNA regulators (miRDB)

204 targeting TRIP12, 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-3613-3P100.0076.367965
HSA-MIR-3646100.0073.565283
HSA-MIR-4692100.0067.322066
HSA-LET-7A-3P100.0074.033932
HSA-LET-7B-3P100.0074.083913
HSA-LET-7F-1-3P100.0074.023928
HSA-MIR-98-3P100.0074.083907
HSA-MIR-1252-5P100.0069.802774
HSA-MIR-30A-5P100.0076.313233
HSA-MIR-30B-5P100.0076.293248
HSA-MIR-30C-5P100.0076.293248
HSA-MIR-30D-5P100.0076.323233
HSA-MIR-30E-5P100.0076.323242
HSA-MIR-8485100.0077.574731
HSA-MIR-3924100.0072.092394
HSA-MIR-3134100.0066.43777
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-451499.9967.101870
HSA-MIR-186-5P99.9970.833707
HSA-MIR-433-3P99.9869.371203
HSA-MIR-3617-3P99.9867.86918
HSA-MIR-32-5P99.9875.211964
HSA-MIR-92A-3P99.9875.211960
HSA-MIR-92B-3P99.9875.251955
HSA-MIR-25-3P99.9874.601817
HSA-MIR-363-3P99.9874.721821
HSA-MIR-367-3P99.9874.831819
HSA-MIR-314899.9775.066478
HSA-MIR-548AJ-3P99.9673.385345
HSA-MIR-548X-3P99.9673.385345

Functional genomics

ClinGen dosage: haploinsufficiency 3 (sufficient evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map

Literature-anchored findings (GeneRIF, showing 27)

  • TRIP12 promotes degradation of APP-BP1 by catalyzing its ubiquitination, which in turn modulates the neddylation pathway. (PMID:18627766)
  • The HECT domain of TRIP12 ubiquitinates substrates of the ubiquitin fusion degradation pathway. (PMID:19028681)
  • ULF is a bona fide E3 ligase for ARF and also suggest that ULF is an important target for activating the ARF-p53 axis in human acute myeloid leukaemia cells. (PMID:20699639)
  • Data show that the mechanism of BAF155-mediated stabilization of BAF57 involves blocking its ubiquitination by preventing interaction with TRIP12. (PMID:20829358)
  • we found somatic mutations of HERC2, HERC3, TRIP12, UBE2Q1 and UBE4B genes in gastric carcinoma and colorectal carcinomas with microsatellite instability (PMID:22124266)
  • data indicate that TRADD shuttles dynamically from the cytoplasm into the nucleus to modulate the interaction between p19(Arf) and its E3 ubiquitin ligase ULF, thereby promoting p19(Arf) protein stability and tumour suppression (PMID:22561347)
  • Study shows that TRIP12 and UBR5, two HECT domain ubiquitin E3 ligases, control accumulation of RNF168, a rate-limiting component of a pathway that ubiquitylates histones after DNA breakage. (PMID:22884692)
  • HUWE1 and TRIP12 collaborate in degradation of ubiquitin-fusion proteins and misframed ubiquitin. (PMID:23209776)
  • An exon3-skipping event in TRIP12 was detected in acute myeloid leukemia patients at remission (PMID:24961348)
  • Data indicate that E3 ubiquitin ligase thyroid hormone receptor-interacting protein 12 (TRIP12) promotes proteasomal degradation of pancreas transcription factor 1a (PTF1a)and regulates PTF1a activities. (PMID:25355311)
  • p16 overexpression led to downregulation of TRIP12, which in turn led to increased RNF168 levels, repressed DNA damage repair (DDR), increased 53BP1 foci and enhanced radioresponsiveness. (PMID:27425591)
  • modulatory role for Trip12 in the USP7-dependent DNA damage response (PMID:27800609)
  • We describe the TRIP12-associated phenotype, showing that TRIP12 is a risk gene for non-syndromic intellectual disability with and without autism spectrum disorder, and that TRIP12 mutation carriers present with a broad phenotypic range within the neurodevelopmental phenotypes. (PMID:27848077)
  • nine presented pathogenic variants further document that TRIP12 haploinsufficiency causes a childhood-onset neurodevelopmental disorder (PMID:28251352)
  • Clark-Baraitser syndrome is associated with a nonsense alteration in the autosomal gene TRIP12. (PMID:31814248)
  • The E3 ubiquitin ligase TRIP12 participates in cell cycle progression and chromosome stability. (PMID:31964993)
  • Novel de novo TRIP12 mutation reveals variable phenotypic presentation while emphasizing core features of TRIP12 variations. (PMID:32424948)
  • The Ubiquitin Ligase TRIP12 Limits PARP1 Trapping and Constrains PARP Inhibitor Efficiency. (PMID:32755579)
  • TRIP12 promotes small-molecule-induced degradation through K29/K48-branched ubiquitin chains. (PMID:33567268)
  • Proteasomal degradation of the tumour suppressor FBW7 requires branched ubiquitylation by TRIP12. (PMID:33824312)
  • TRIP12 has an inhibitory role in Epithelial-Mesenchymal Transition (EMT) and possibly, metastasis (PMID:33963176)
  • TRIP12 ubiquitination of glucocerebrosidase contributes to neurodegeneration in Parkinson’s disease. (PMID:34644545)
  • Episignature Mapping of TRIP12 Provides Functional Insight into Clark-Baraitser Syndrome. (PMID:36430143)
  • Small molecule Z363 co-regulates TAF10 and MYC via the E3 ligase TRIP12 to suppress tumour growth. (PMID:36639831)
  • The neurodevelopmental and facial phenotype in individuals with a TRIP12 variant. (PMID:36747006)
  • Analysis of Ku70 S155 Phospho-Specific BioID2 Interactome Identifies Ku Association with TRIP12 in Response to DNA Damage. (PMID:37108203)
  • The E3 ubiquitin ligase TRIP12 is required for pancreatic acinar cell plasticity and pancreatic carcinogenesis. (PMID:38924548)

Cross-species orthologs

3 orthologs

OrganismSymbolGene ID
danio_reriotrip12ENSDARG00000061397
mus_musculusTrip12ENSMUSG00000026219
rattus_norvegicusTrip12ENSRNOG00000016963

Paralogs (24): HECW1 (ENSG00000002746), UBE3C (ENSG00000009335), NEDD4L (ENSG00000049759), NEDD4 (ENSG00000069869), ITCH (ENSG00000078747), HACE1 (ENSG00000085382), HUWE1 (ENSG00000086758), HECTD1 (ENSG00000092148), UBR5 (ENSG00000104517), SMURF2 (ENSG00000108854), UBE3A (ENSG00000114062), AREL1 (ENSG00000119682), WWP1 (ENSG00000123124), HERC2 (ENSG00000128731), HECW2 (ENSG00000138411), HERC3 (ENSG00000138641), HERC6 (ENSG00000138642), HERC5 (ENSG00000138646), HERC4 (ENSG00000148634), UBE3B (ENSG00000151148), HECTD2 (ENSG00000165338), HECTD4 (ENSG00000173064), WWP2 (ENSG00000198373), SMURF1 (ENSG00000198742)

Protein

Protein identifiers

E3 ubiquitin-protein ligase TRIP12Q14669 (reviewed: Q14669)

Alternative names: E3 ubiquitin-protein ligase for Arf, HECT-type E3 ubiquitin transferase TRIP12, Thyroid receptor-interacting protein 12

All UniProt accessions (17): Q14669, A0A6Q8PGG9, A0A6Q8PHK0, A0A994J4J0, A0A994J4J6, A0A994J4S0, A0A994J569, A0A994J752, A0A994J755, A0A994J7J0, C9JLD7, C9JLJ5, C9JSX9, F8W9P3, G5E9G6, H7C1L9, H7C2Y1

UniProt curated annotations — full annotation on UniProt →

Function. E3 ubiquitin-protein ligase involved in ubiquitin fusion degradation (UFD) pathway and regulation of DNA repair. Part of the ubiquitin fusion degradation (UFD) pathway, a process that mediates ubiquitination of protein at their N-terminus, regardless of the presence of lysine residues in target proteins. Acts as a key regulator of DNA damage response by acting as a suppressor of RNF168, an E3 ubiquitin-protein ligase that promotes accumulation of ‘Lys-63’-linked histone H2A and H2AX at DNA damage sites, thereby acting as a guard against excessive spreading of ubiquitinated chromatin at damaged chromosomes. In normal cells, mediates ubiquitination and degradation of isoform p19ARF/ARF of CDKN2A, a lysine-less tumor suppressor required for p53/TP53 activation under oncogenic stress. In cancer cells, however, isoform p19ARF/ARF and TRIP12 are located in different cell compartments, preventing isoform p19ARF/ARF ubiquitination and degradation. Does not mediate ubiquitination of isoform p16-INK4a of CDKN2A. Also catalyzes ubiquitination of NAE1 and SMARCE1, leading to their degradation. Ubiquitination and degradation of target proteins is regulated by interaction with proteins such as MYC, TRADD or SMARCC1, which disrupt the interaction between TRIP12 and target proteins. Mediates ubiquitination of ASXL1: following binding to N(6)-methyladenosine methylated DNA, ASXL1 is ubiquitinated by TRIP12, leading to its degradation and subsequent inactivation of the PR-DUB complex.

Subunit / interactions. Interacts with MYC; leading to disrupt interaction with isoform p19ARF/ARF of CDKN2A. Interacts with TRADD; leading to disrupt interaction with isoform p19ARF/ARF of CDKN2A. Interacts with SMARCC1; leading to disrupt interaction with SMARCE1.

Subcellular location. Nucleus. Nucleoplasm.

Disease relevance. Clark-Baraitser syndrome (CLABARS) [MIM:617752] An autosomal dominant disease characterized by intellectual disability, delayed psychomotor development, behavioral abnormalities, variable dysmorphic facial features, tall stature, obesity, and macrocephaly. The disease is caused by variants affecting the gene represented in this entry.

Activity regulation. Preferentially modifies ‘Lys-29’ in the proximal ubiquitin in a ‘Lys-48’-linked di-ubiquitin chain.

Domain organisation. The ARM domain allows tandem binding of ubiquitins.

Pathway. Protein modification; protein ubiquitination.

Similarity. Belongs to the UPL family. K-HECT subfamily.

Isoforms (5)

UniProt IDNamesCanonical?
Q14669-11yes
Q14669-22
Q14669-33
Q14669-44
Q14669-65

RefSeq proteins (26): NP_001271143, NP_001271144, NP_001271145, NP_001335244, NP_001335245, NP_001335246, NP_001335247, NP_001335248, NP_001335249, NP_001335250, NP_001335251, NP_001335252, NP_001335253, NP_001335254, NP_001335255, NP_001335256, NP_001335257, NP_001335258, NP_001335259, NP_001335260, NP_001335261, NP_001335262, NP_001335263, NP_001335264, NP_001335265, NP_004229 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000569HECT_domDomain
IPR004170WWE_domDomain
IPR011989ARM-likeHomologous_superfamily
IPR016024ARM-type_foldHomologous_superfamily
IPR035983Hect_E3_ubiquitin_ligaseHomologous_superfamily
IPR037197WWE_dom_sfHomologous_superfamily
IPR045322HECTD1/TRIP12-likeFamily
IPR057948TPR_TRIP12_NDomain

Pfam: PF00632, PF25579

Enzyme classification (BRENDA):

  • EC 2.3.2.26 — HECT-type E3 ubiquitin transferase (BRENDA: 14 organisms, 64 substrates, 19 inhibitors, 5 Km, 5 kcat entries)

Substrate kinetics (BRENDA)

1 substrates with measured Km, best-characterized 1. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
[UBC5B]-L-LYSINE0.0046–0.0375

UniProt features (82 total): modified residue 20, compositionally biased region 17, sequence variant 8, splice variant 7, region of interest 6, repeat 6, mutagenesis site 5, strand 4, sequence conflict 2, domain 2, initiator methionine 1, chain 1, active site 1, helix 1, turn 1

Structure

Experimental structures (PDB)

5 structures.

PDBMethodResolution (Å)
9BKSX-RAY DIFFRACTION1.17
9BKRX-RAY DIFFRACTION1.4
9GKNELECTRON MICROSCOPY3.4
9KENELECTRON MICROSCOPY3.63
9GKMELECTRON MICROSCOPY3.69

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q14669-F168.060.27

Functional residue map

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

Catalytic / active sites (1): 2034 (glycyl thioester intermediate)

Post-translational modifications (20): 2, 12, 119, 127, 142, 223, 352, 354, 1017, 1066, 1072, 1091, 1105, 1392, 1397, 1404, 1451, 1452, 1500, 1502

Mutagenesis-validated functional residues (5):

PositionPhenotype
2034abolishes e3 ubiquitin-protein ligase activity.
2037abolishes e3 ubiquitin-protein ligase activity.
2039abolishes e3 ubiquitin-protein ligase activity.
2067impairs e3 ubiquitin-protein ligase activity.
2067abolishes e3 ubiquitin-protein ligase activity.

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-983168Antigen processing: Ubiquitination & Proteasome degradation

MSigDB gene sets: 298 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_BRAIN_TUMORAL_MACROPHAGE_UP, GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_DN, GSE18804_SPLEEN_MACROPHAGE_VS_TUMORAL_MACROPHAGE_UP, GSE45365_CTRL_VS_MCMV_INFECTION_NK_CELL_DN, REACTOME_ADAPTIVE_IMMUNE_SYSTEM, REACTOME_CLASS_I_MHC_MEDIATED_ANTIGEN_PROCESSING_PRESENTATION, REACTOME_ANTIGEN_PROCESSING_UBIQUITINATION_PROTEASOME_DEGRADATION, GOBP_MACROMOLECULE_CATABOLIC_PROCESS, LINDGREN_BLADDER_CANCER_CLUSTER_3_DN, GOBP_NEGATIVE_REGULATION_OF_GENE_EXPRESSION_EPIGENETIC, WANG_LMO4_TARGETS_DN, TGTGTGA_MIR377, DACOSTA_UV_RESPONSE_VIA_ERCC3_COMMON_DN, GOBP_DNA_DAMAGE_RESPONSE, AAAGGGA_MIR204_MIR211

GO Biological Process (9): protein polyubiquitination (GO:0000209), DNA repair (GO:0006281), ubiquitin-dependent protein catabolic process (GO:0006511), DNA damage response (GO:0006974), heterochromatin boundary formation (GO:0033696), proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161), regulation of embryonic development (GO:0045995), DNA repair-dependent chromatin remodeling (GO:0140861), protein ubiquitination (GO:0016567)

GO Molecular Function (6): nuclear thyroid hormone receptor binding (GO:0046966), ubiquitin protein ligase activity (GO:0061630), ubiquitin-protein transferase activity (GO:0004842), protein binding (GO:0005515), zinc ion binding (GO:0008270), transferase activity (GO:0016740)

GO Cellular Component (4): nucleus (GO:0005634), nucleoplasm (GO:0005654), cytosol (GO:0005829), nuclear speck (GO:0016607)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Class I MHC mediated antigen processing & presentation1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
protein ubiquitination2
DNA damage response2
cellular anatomical structure2
DNA metabolic process1
modification-dependent protein catabolic process1
cellular response to stress1
heterochromatin formation1
heterochromatin organization1
ubiquitin-dependent protein catabolic process1
proteasomal protein catabolic process1
embryo development1
regulation of multicellular organismal development1
chromatin remodeling1
protein modification by small protein conjugation1
nuclear receptor binding1
ubiquitin-protein transferase activity1
ubiquitin-like protein ligase activity1
ubiquitin-like protein transferase activity1
binding1
transition metal ion binding1
catalytic activity1
intracellular membrane-bounded organelle1
nuclear lumen1
cytoplasm1
nuclear ribonucleoprotein granule1

Protein interactions and networks

STRING

3715 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
TRIP12RNF168Q8IYW5776
TRIP12USP7Q93009726
TRIP12UBE2SQ16763715
TRIP12UBE2KP27924676
TRIP12RNF146Q9NTX7605
TRIP12PPIL4Q8WUA2590
TRIP12UBE4BO95155575
TRIP12SOX6P35712550
TRIP12RAD18Q9NS91549
TRIP12SMARCE1Q969G3549
TRIP12TXNRD2Q9NNW7547
TRIP12ANAPC10Q9UM13545
TRIP12MED13LQ71F56543
TRIP12ADNPQ9H2P0543
TRIP12FBXO36Q8NEA4541

IntAct

154 interactions, top by confidence:

ABTypeScore
CAPN1CAPNS1psi-mi:“MI:0914”(association)0.840
RFXANKRFXAPpsi-mi:“MI:0914”(association)0.780
KBTBD7METTL15psi-mi:“MI:0914”(association)0.730
CFTRXPO1psi-mi:“MI:0914”(association)0.710
CFTRESYT2psi-mi:“MI:2364”(proximity)0.710
EIF3IEIF3CLpsi-mi:“MI:0914”(association)0.640
YWHAGBLTP3Bpsi-mi:“MI:2364”(proximity)0.640
TRIP12MYCpsi-mi:“MI:0407”(direct interaction)0.630
TRIP12MYCpsi-mi:“MI:0915”(physical association)0.630
TRIP12MYCpsi-mi:“MI:0914”(association)0.630
TRIP12CDKN2Apsi-mi:“MI:0915”(physical association)0.600
TRIP12CDKN2Apsi-mi:“MI:0407”(direct interaction)0.600
YWHAHBLTP3Bpsi-mi:“MI:2364”(proximity)0.570
MECP2GTPBP10psi-mi:“MI:0914”(association)0.530
BCAT1ARNTpsi-mi:“MI:0914”(association)0.530
YWHAZBLTP3Bpsi-mi:“MI:0914”(association)0.530
OPCMLCANXpsi-mi:“MI:0914”(association)0.530

BioGRID (324): TRIP12 (Reconstituted Complex), TRIP12 (Two-hybrid), TRIP12 (Affinity Capture-Western), PTF1A (Affinity Capture-Western), TRIP12 (FRET), TRIP12 (Affinity Capture-MS), TRIP12 (Affinity Capture-MS), TRIP12 (Affinity Capture-MS), TRIP12 (Affinity Capture-MS), TRIP12 (Affinity Capture-MS), TRIP12 (Affinity Capture-MS), TRIP12 (Affinity Capture-MS), TRIP12 (Proximity Label-MS), TRIP12 (Biochemical Activity), TRIP12 (Proximity Label-MS)

ESM2 similar proteins: A8XEA2, B0WMG3, B2RRD7, B3M301, B3MIW0, B3MSI4, B3NU20, B4F6W9, B4GUZ2, B4I100, B4JMQ2, B4JW99, B4L6Q5, B4M7P8, B4NBP4, B4NP88, B4Q068, B4R4H1, C3XRY1, E1B7Q7, F1LP64, F1RCR6, G5E870, O01658, O16810, O60341, O88808, P50586, P55201, Q13416, Q14669, Q16W06, Q24168, Q63028, Q640I9, Q689Z5, Q6AW06, Q6P1G2, Q6ZQ88, Q756E1

Diamond homologs: A0A8C0NGY6, A1CQG2, A1D3C5, A2A5Z6, A2QQ28, A9JRZ0, B0XQ72, B8N7E5, D3ZBM7, D6C652, E1B7Q7, E1C656, F1LP64, F1N6G5, F8W2M1, G0S9J5, G5E870, H2LBU8, O00308, O08759, O13834, O14326, O15033, P39940, P40985, P46934, P46935, P46937, P46938, P51593, P53119, Q03280, Q05086, Q08CZ0, Q09291, Q0CCL1, Q14669, Q15034, Q15386, Q1K9C4

SIGNOR signaling

5 interactions.

AEffectBMechanism
TRIP12“down-regulates quantity by destabilization”CDKN2Aubiquitination
TRIP12“down-regulates activity”RNF168ubiquitination
Ub:E2“up-regulates activity”TRIP12ubiquitination
TRIP12“down-regulates quantity by destabilization”SOX6ubiquitination
TRIP12“down-regulates quantity by destabilization”NAE1ubiquitination

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 179 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
Activation of BAD and translocation to mitochondria743.0×4e-08
Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex737.9×5e-08
SARS-CoV-1 targets host intracellular signalling and regulatory pathways737.9×5e-08
Activation of BH3-only proteins728.0×5e-07
Intrinsic Pathway for Apoptosis921.2×5e-08
RHO GTPases activate PKNs717.9×7e-06
FOXO-mediated transcription513.5×1e-03
SARS-CoV-1-host interactions912.8×3e-06

GO biological processes:

GO termPartnersFoldFDR
ribosomal large subunit biogenesis513.5×6e-03
protein targeting613.4×1e-03
intracellular protein localization106.4×1e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic64
Likely pathogenic33
Uncertain significance406
Likely benign90
Benign34

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
1028708NM_001348323.3(TRIP12):c.5459dup (p.Ala1821fs)Pathogenic
1064786NM_001348323.3(TRIP12):c.2118_2119insT (p.Thr707fs)Pathogenic
1069025NM_001348323.3(TRIP12):c.1857del (p.Glu619fs)Pathogenic
1070789NM_001348323.3(TRIP12):c.3968+1G>TPathogenic
1098379NM_001348323.3(TRIP12):c.4646_4668del (p.Leu1549fs)Pathogenic
1098392NM_001348323.3(TRIP12):c.5215del (p.Gln1739fs)Pathogenic
1164053NM_001348323.3(TRIP12):c.2378_2379insT (p.Val794fs)Pathogenic
1175992NM_001348323.3(TRIP12):c.4695+1G>APathogenic
1184101NM_001348323.3(TRIP12):c.3779del (p.Arg1260fs)Pathogenic
1194542NM_001348323.3(TRIP12):c.4995del (p.Lys1665fs)Pathogenic
1285508NM_001348323.3(TRIP12):c.4726del (p.Ser1576fs)Pathogenic
1326281NM_001348323.3(TRIP12):c.2776G>T (p.Gly926Ter)Pathogenic
1700135NM_001348323.3(TRIP12):c.4302_4303del (p.Tyr1435fs)Pathogenic
1703055NM_001348323.3(TRIP12):c.3816+2T>APathogenic
1709568NM_001348323.3(TRIP12):c.4216-2A>GPathogenic
1992332NM_001348323.3(TRIP12):c.5452_5453delinsAAACAAATTGTAAATTGTACCA (p.Pro1818fs)Pathogenic
2258023NM_001348323.3(TRIP12):c.5905_5908delinsATATGGTATATTTACTT (p.Arg1969fs)Pathogenic
2438549NM_001348323.3(TRIP12):c.5675del (p.Asn1892fs)Pathogenic
2446125NM_001348323.3(TRIP12):c.3787C>T (p.Arg1263Ter)Pathogenic
2498135NM_001348323.3(TRIP12):c.2065C>T (p.Gln689Ter)Pathogenic
2504746NM_001348323.3(TRIP12):c.334C>T (p.Arg112Ter)Pathogenic
2578429NM_001348323.3(TRIP12):c.3869del (p.Leu1290fs)Pathogenic
2579158NM_001348323.3(TRIP12):c.1012C>T (p.Gln338Ter)Pathogenic
2584503NM_001348323.3(TRIP12):c.4317del (p.Gln1440fs)Pathogenic
2627078NM_001348323.3(TRIP12):c.1787_1800del (p.Met596fs)Pathogenic
3062612GRCh37/hg19 2q36.3(chr2:230591144-230654311)x1Pathogenic
3063732NM_001348323.3(TRIP12):c.638_639del (p.Arg213fs)Pathogenic
3254927NM_001348323.3(TRIP12):c.2624del (p.Pro875fs)Pathogenic
3256549NM_001348323.3(TRIP12):c.3551del (p.Asn1184fs)Pathogenic
3340943NM_001348323.3(TRIP12):c.3247C>T (p.Arg1083Ter)Pathogenic

SpliceAI

6101 predictions. Top by Δscore:

VariantEffectΔscore
2:229767748:ATC:Aacceptor_gain1.0000
2:229767749:TC:Tacceptor_gain1.0000
2:229767750:CC:Cacceptor_gain1.0000
2:229767750:CCTG:Cacceptor_loss1.0000
2:229767751:C:CCacceptor_gain1.0000
2:229767751:C:Tacceptor_gain1.0000
2:229767755:T:Cacceptor_gain1.0000
2:229767755:T:TCacceptor_gain1.0000
2:229768715:CCCGA:Cacceptor_gain1.0000
2:229768716:CCGA:Cacceptor_gain1.0000
2:229768716:CCGAC:Cacceptor_gain1.0000
2:229768717:CGA:Cacceptor_gain1.0000
2:229768717:CGAC:Cacceptor_gain1.0000
2:229768718:GA:Gacceptor_gain1.0000
2:229768720:C:CCacceptor_gain1.0000
2:229769227:TTAC:Tdonor_loss1.0000
2:229769228:TA:Tdonor_loss1.0000
2:229769229:A:ACdonor_gain1.0000
2:229769229:AC:Adonor_gain1.0000
2:229769230:C:CAdonor_gain1.0000
2:229769230:CC:Cdonor_gain1.0000
2:229769230:CCT:Cdonor_gain1.0000
2:229769230:CCTG:Cdonor_gain1.0000
2:229769230:CCTGT:Cdonor_gain1.0000
2:229769321:TCCAG:Tacceptor_gain1.0000
2:229769322:CCAG:Cacceptor_gain1.0000
2:229769322:CCAGC:Cacceptor_gain1.0000
2:229769323:CAG:Cacceptor_gain1.0000
2:229769323:CAGC:Cacceptor_gain1.0000
2:229769324:AG:Aacceptor_gain1.0000

AlphaMissense

13516 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:229767561:A:GL1991P1.000
2:229767566:G:CF1989L1.000
2:229767566:G:TF1989L1.000
2:229767567:A:GF1989S1.000
2:229767568:A:GF1989L1.000
2:229767579:C:TG1985E1.000
2:229767580:C:AG1985W1.000
2:229767580:C:GG1985R1.000
2:229767580:C:TG1985R1.000
2:229767591:G:TA1981E1.000
2:229767600:A:GL1978P1.000
2:229767631:A:CY1968D1.000
2:229767631:A:GY1968H1.000
2:229767636:G:CP1966R1.000
2:229767636:G:TP1966Q1.000
2:229767637:G:AP1966S1.000
2:229767639:A:CL1965W1.000
2:229767639:A:GL1965S1.000
2:229767641:C:AK1964N1.000
2:229767641:C:GK1964N1.000
2:229767643:T:CK1964E1.000
2:229767645:A:CL1963R1.000
2:229767645:A:GL1963P1.000
2:229767645:A:TL1963H1.000
2:229767648:T:CY1962C1.000
2:229767649:A:CY1962D1.000
2:229767649:A:GY1962H1.000
2:229767649:A:TY1962N1.000
2:229767650:G:CN1961K1.000
2:229767650:G:TN1961K1.000

dbSNP variants (sampled 300 via entrez): RS1000017238 (2:229922449 C>T), RS1000024289 (2:229916823 T>A,C), RS1000034276 (2:229855010 T>A), RS1000055648 (2:229874256 T>C), RS1000094298 (2:229843224 A>G), RS1000115869 (2:229904295 G>A), RS1000129906 (2:229922248 T>A,C), RS1000160056 (2:229781111 G>A), RS1000189630 (2:229773071 A>G), RS1000203445 (2:229907763 A>G), RS1000209519 (2:229856443 G>A), RS1000245540 (2:229774550 T>A,C), RS1000257310 (2:229768582 T>C,G), RS1000299121 (2:229843564 A>G), RS1000300182 (2:229814182 T>A,C)

Disease associations

OMIM: gene MIM:604506 | disease phenotypes: MIM:300602, MIM:617752

GenCC curated gene-disease

DiseaseClassificationInheritance
Clark-Baraitser syndromeDefinitiveAutosomal dominant
syndromic intellectual disabilitySupportiveAutosomal dominant

ClinGen Gene-Disease Validity (1)

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

DiseaseClassificationInheritance
complex neurodevelopmental disorderDefinitiveAD

Mondo (6): Clark-Baraitser syndrome (MONDO:0030914), neurodevelopmental disorder (MONDO:0700092), prostate cancer (MONDO:0008315), intellectual disability (MONDO:0001071), self-limited familial infantile epilepsy (MONDO:0100024), syndromic intellectual disability (MONDO:0000508)

Orphanet (3): Clark-Baraitser syndrome (Orphanet:600731), Familial prostate cancer (Orphanet:1331), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)

HPO phenotypes

38 total (30 of 38 shown, HPO-id order):

HPOTerm
HP:0000006Autosomal dominant inheritance
HP:0000154Wide mouth
HP:0000218High palate
HP:0000219Thin upper lip vermilion
HP:0000248Brachycephaly
HP:0000252Microcephaly
HP:0000268Dolichocephaly
HP:0000286Epicanthus
HP:0000307Pointed chin
HP:0000316Hypertelorism
HP:0000319Smooth philtrum
HP:0000322Short philtrum
HP:0000340Sloping forehead
HP:0000343Long philtrum
HP:0000369Low-set ears
HP:0000463Anteverted nares
HP:0000486Strabismus
HP:0000582Upslanted palpebral fissure
HP:0000718Aggressive behavior
HP:0000729Autistic behavior
HP:0000739Anxiety
HP:0000750Delayed speech and language development
HP:0000752Hyperactivity
HP:0001249Intellectual disability
HP:0001250Seizure
HP:0001252Hypotonia
HP:0001263Global developmental delay
HP:0001270Motor delay
HP:0001513Obesity
HP:0001852Sandal gap

GWAS associations

8 associations (top):

StudyTraitp-value
GCST006624_12Systolic blood pressure6.000000e-11
GCST007876_21Estimated glomerular filtration rate5.000000e-09
GCST008058_269Estimated glomerular filtration rate5.000000e-08
GCST008059_224Estimated glomerular filtration rate3.000000e-07
GCST008152_138Weight6.000000e-06
GCST009391_883Metabolite levels5.000000e-06
GCST009391_886Metabolite levels8.000000e-06
GCST010151_7Carotid intima media thickness x smoking interaction8.000000e-06

EFO canonical traits (4, from GWAS)

EFO IDTrait name
EFO:0006335systolic blood pressure
EFO:0004338body weight
EFO:0010439triacylglycerol 58:12 measurement
EFO:0006527smoking status measurement

MeSH disease descriptors (4)

DescriptorNameTree numbers
D008607Intellectual DisabilityC10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539
D065886Neurodevelopmental DisordersF03.625
D011471Prostatic NeoplasmsC04.588.945.440.770; C12.100.500.260.750; C12.100.500.565.625; C12.200.294.260.750; C12.200.294.565.625; C12.200.758.409.750; C12.900.619.750
C536208Clark-Baraitser syndrome (supp.)

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

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

ChemicalActions (top 5)PubMed papers
bisphenol Aaffects cotreatment, increases methylation, increases expression3
Valproic Acidaffects expression, decreases expression3
arsenitedecreases reaction, increases methylation, affects binding2
sodium arseniteincreases expression, affects cotreatment, decreases expression, increases abundance2
Quercetindecreases expression, decreases phosphorylation2
7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxideincreases expression, decreases expression2
aristolochic acid Idecreases expression1
FR900359affects phosphorylation1
2,4,6-tribromophenoldecreases expression1
triphenyl phosphateaffects expression1
beta-lapachonedecreases expression1
methylparabendecreases expression1
tetrabromobisphenol Adecreases expression1
manganese chloridedecreases expression, increases abundance, affects cotreatment1
benzo(e)pyrenedecreases methylation1
coumarindecreases phosphorylation1
nivalenolincreases expression1
2,3,5-(triglutathion-S-yl)hydroquinonedecreases ADP-ribosylation, increases ADP-ribosylation1
K 7174increases expression1
ICG 001decreases expression1
2,2’,4,4’-tetrabromodiphenyl etherdecreases expression1
pentabrominated diphenyl ether 100decreases expression1
bisphenol AFincreases 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
Resveratrolaffects cotreatment, increases expression1
Temozolomidedecreases expression1
Sunitinibincreases expression1
Arsenic Trioxideincreases expression1
Fulvestrantaffects cotreatment, increases methylation1
Arsenicaffects cotreatment, decreases expression, increases abundance1

Cellosaurus cell lines

3 cell lines: 3 cancer cell line

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

CellosaurusNameCategorySex
CVCL_C7YXHAP1 TRIP12 (-) 1Cancer cell lineMale
CVCL_C7YYHAP1 TRIP12 (-) 2Cancer cell lineMale
CVCL_C7YZHAP1 TRIP12 (-) 3Cancer cell lineMale

Clinical trials (associated diseases)

202 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT04586348PHASE4UNKNOWNPrenatal Iodine Supplementation and Early Childhood Neurodevelopment
NCT04873115PHASE4UNKNOWNDouble-blind, Placebo-controlled, Randomized Clinical Trial Comparing the Efficacy and Safety of Sialanar Plus orAl rehabiLitation Against Placebo Plus Oral Rehabilitation for chIldren and Adolescents With seVere Sialorrhoea and Neurodisabilties,
NCT02559102PHASE3COMPLETEDDexmedetomidine Sedation Versus General Anaesthesia for Inguinal Hernia Surgery in Infants
NCT02757079PHASE3COMPLETEDStudy of the Efficacy and Safety of NPC-15 for Sleep Disorders of Children With Neurodevelopmental Disorders
NCT06915480PHASE3RECRUITINGReducing Missed Appointments
NCT07377032PHASE3RECRUITINGTAP-GRIN: Interventional Study on Patients With GRIN-related Neurodevelopmental Disorders
NCT02909959PHASE2COMPLETEDSulforaphane for the Treatment of Young Men With Autism Spectrum Disorder
NCT06081348PHASE2RECRUITINGSertraline vs. Placebo in the Treatment of Anxiety in Children and AdoLescents With NeurodevelopMental Disorders
NCT06352372PHASE2COMPLETEDSafety and Efficacy of tPBM for Epileptiform Activity in Autism
NCT00503191PHASE1COMPLETEDNeuroModulation Technique Treatment of Autism
NCT04475848PHASE1COMPLETEDA Study to Investigate the Safety, Tolerability, Pharmacokinetics, Pharmacodynamics and Food Effect of RO6953958 in Healthy Participants
NCT06300398PHASE1COMPLETEDIAMA-6 Oral Dose Study in Healthy Adults
NCT01783041PHASE2/PHASE3COMPLETEDEffect of Early L-Carnitine Supplementation on Neurodevelopmental Outcomes in Very Preterm Infants
NCT05767385PHASE2/PHASE3RECRUITINGFetal Cerebrovascular Autoregulation in Congenital Heart Disease and Association With Neonatal Neurobehavior
NCT05675098EARLY_PHASE1NOT_YET_RECRUITINGCentral Nervous System Stimulants and Physical Function in Children With Cerebral Palsy
NCT00783783Not specifiedCOMPLETEDCYP2D6 Pharmacogenetics in Risperidone-Treated Children
NCT01778504Not specifiedRECRUITINGStudying Childhood-onset Behavioral, Psychiatric, and Developmental Disorders
NCT01850784Not specifiedUNKNOWNHigh Energy Formula Feeding in Infants With Congenital Heart Disease
NCT01922791Not specifiedCOMPLETEDNutrition and Pregnancy Intervention Study
NCT01942525Not specifiedUNKNOWNInfluence of Intrauterine Growth Restriction on Amplitude-integrated EEG in Preterm Infants
NCT02003170Not specifiedCOMPLETEDEtiology and Early Diagnosis of Neurodevelopmental Disorders
NCT02118649Not specifiedACTIVE_NOT_RECRUITINGEnhancing Behavior and Brain Response to Visual Targets Using a Computer Game
NCT02557191Not specifiedTERMINATEDBiomarkers, Neurodevelopment and Preterm Infants
NCT02690675Not specifiedCOMPLETEDIron Supplement Effect on Child Development
NCT02694003Not specifiedCOMPLETEDBetter Nights, Better Days for Children With Neurodevelopment Disorders
NCT02792894Not specifiedCOMPLETEDFamily Networks (FaNs) for Children With Developmental Disorders and Delays
NCT02871674Not specifiedUNKNOWNGood Night Project: Behavioural Sleep Interventions for Children With ADHD: A Randomised Controlled Trial
NCT02887157Not specifiedCOMPLETEDAnalyzing Retinal Microanatomy in ROP
NCT02898298Not specifiedCOMPLETEDPositive Emotion Regulation Training in Children, Adolescents and Young Adults With and Without Developmental Disorder
NCT02912780Not specifiedUNKNOWNIntroduction of Microsystems in a Level 3 Neonatal Intensive Care Unit
NCT03023293Not specifiedCOMPLETEDn-3 PUFAs, Irisin and Maternal Glucose Metabolism From Pregnancy to Postpartum
NCT03023644Not specifiedCOMPLETEDImproving Neurodevelopmental Outcomes in Children With Congenital Heart Disease: An Intervention Study
NCT03032991Not specifiedUNKNOWNEarly Biomarkers of Neurodevelopment in Offspring of Diabetic Mothers
NCT03088189Not specifiedTERMINATEDEffect of Parental Peri-conceptional Vitamin B12 Supplementation on Infant Neurocognitive Development in Offspring
NCT03096028Not specifiedCOMPLETEDDevelopmental Origins of Mental Health Disorders
NCT03148782Not specifiedCOMPLETEDBrain Plasticity Underlying Acquisition of New Organizational Skills in Children-R61 Phase
NCT03172104Not specifiedCOMPLETEDNeurobehavioural Development of Infants Born <30 Weeks Gestational Age Between Birth and Five Years of Age
NCT03222375Not specifiedRECRUITINGSQUED™ Series 28.1 Home-use and Treatment of Autowave Reverberator of Autism
NCT03229928Not specifiedCOMPLETEDClinical Testing of a Real-Time Behavior Measurement Tool: Measuring Outcomes for CHAnge
NCT03232489Not specifiedUNKNOWNStudy for the Evaluation of the Feasibility of Applying Advanced MRI Scanning in Pediatric Clinical Practice