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Aliases for THRAP3 Gene

Aliases for THRAP3 Gene

  • Thyroid Hormone Receptor Associated Protein 3 2 3 5
  • BCLAF1 And THRAP3 Family Member 2 2 3 4
  • Thyroid Hormone Receptor-Associated Protein Complex 150 KDa Component 3 4
  • TR-Associated Protein, 150-KDa 2 3
  • TRAP150 3 4
  • BCLAF2 3 4
  • Thyroid Hormone Receptor-Associated Protein, 150 KDa Subunit 3
  • Thyroid Hormone Receptor-Associated Protein 3 3
  • Trap150 4

External Ids for THRAP3 Gene

Previous GeneCards Identifiers for THRAP3 Gene

  • GC01P036117
  • GC01P036359
  • GC01P036462
  • GC01P036690
  • GC01P034807

Summaries for THRAP3 Gene

GeneCards Summary for THRAP3 Gene

THRAP3 (Thyroid Hormone Receptor Associated Protein 3) is a Protein Coding gene. Diseases associated with THRAP3 include Wilms Tumor 1. Among its related pathways are Metabolism and Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha). Gene Ontology (GO) annotations related to this gene include transcription coactivator activity. An important paralog of this gene is BCLAF1.

UniProtKB/Swiss-Prot for THRAP3 Gene

  • Involved in pre-mRNA splicing. Remains associated with spliced mRNA after splicing which probably involves interactions with the exon junction complex (EJC). Can trigger mRNA decay which seems to be independent of nonsense-mediated decay involving premature stop codons (PTC) recognition. May be involved in nuclear mRNA decay. Involved in regulation of signal-induced alternative splicing. During splicing of PTPRC/CD45 is proposed to sequester phosphorylated SFPQ from PTPRC/CD45 pre-mRNA in resting T-cells. Involved in cyclin-D1/CCND1 mRNA stability probably by acting as component of the SNARP complex which associates with both the 3end of the CCND1 gene and its mRNA. Involved in response to DNA damage. Is excluced from DNA damage sites in a manner that parallels transcription inhibition; the function may involve the SNARP complex. Initially thought to play a role in transcriptional coactivation through its association with the TRAP complex; however, it is not regarded as a stable Mediator complex subunit. Cooperatively with HELZ2, enhances the transcriptional activation mediated by PPARG, maybe through the stabilization of the PPARG binding to DNA in presence of ligand. May play a role in the terminal stage of adipocyte differentiation. Plays a role in the positive regulation of the circadian clock. Acts as a coactivator of the CLOCK-ARNTL/BMAL1 heterodimer and promotes its transcriptional activator activity and binding to circadian target genes (PubMed:24043798).

Gene Wiki entry for THRAP3 Gene

Additional gene information for THRAP3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for THRAP3 Gene

Genomics for THRAP3 Gene

GeneHancer (GH) Regulatory Elements for THRAP3 Gene

Promoters and enhancers for THRAP3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J036222 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 650.7 0.0 -24 4.7 CLOCK MLX FEZF1 DMAP1 YY1 ZNF213 E2F8 ZNF143 ZNF263 SP3 THRAP3 AGO3 TRAPPC3 MAP7D1 COL8A2 ADPRHL2 TEKT2 LOC100128093 LSM10 RNU4-27P
GH01J036154 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 42.3 -67.7 -67749 4.5 PKNOX1 SMAD1 ARID4B SIN3A ZNF2 ZBTB7B POLR2B ZNF213 ZNF143 ZNF548 MAP7D1 TRAPPC3 SFPQ AGO3 ZMYM4 RPL5P4 THRAP3 COL8A2 EVA1B AGO4
GH01J036384 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 40.3 +163.7 163717 7.8 CLOCK MLX FEZF1 DMAP1 YY1 E2F8 ZNF416 ZNF143 SP3 NFYC STK40 THRAP3 EVA1B AGO3 LOC105378647 TRAPPC3 ENSG00000116883 SH3D21 SNORA63C OSCP1
GH01J036463 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 41.7 +240.3 240255 2.9 MLX ZFP64 YBX1 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 MRPS15 THRAP3 AGO3 LOC105378647 STK40 EVA1B TRAPPC3 OSCP1 CSF3R
GH01J036087 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 30.7 -135.2 -135164 2.7 ZFP64 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 NFYC ADPRHL2 SFPQ LOC105378647 THRAP3 ZMYM4 STK40 AGO3 TRAPPC3 EVA1B AGO1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around THRAP3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the THRAP3 gene promoter:
  • AREB6
  • Spz1
  • COMP1
  • STAT1
  • deltaCREB
  • CREB
  • FOXO4
  • Msx-1
  • Sox9
  • C/EBPalpha

Genomic Locations for THRAP3 Gene

Genomic Locations for THRAP3 Gene
chr1:36,224,416-36,305,357
(GRCh38/hg38)
Size:
80,942 bases
Orientation:
Plus strand
chr1:36,690,017-36,770,958
(GRCh37/hg19)
Size:
80,942 bases
Orientation:
Plus strand

Genomic View for THRAP3 Gene

Genes around THRAP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
THRAP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for THRAP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for THRAP3 Gene

Proteins for THRAP3 Gene

  • Protein details for THRAP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y2W1-TR150_HUMAN
    Recommended name:
    Thyroid hormone receptor-associated protein 3
    Protein Accession:
    Q9Y2W1
    Secondary Accessions:
    • D3DPS5
    • Q5VTK6

    Protein attributes for THRAP3 Gene

    Size:
    955 amino acids
    Molecular mass:
    108666 Da
    Quaternary structure:
    • Associated with the large multiprotein complex TRAP (Mediator complex-like). Interacts with SFPQ; the interaction is dependent on SFPQ phosphorylation at Thr-687 and inhibits binding of SFPQ to an ESS1 exonic splicing silencer element-containing RNA. Interacts with NXF1. Component of the SNARP complex which consists at least of SNIP1, SNW1, THRAP3, BCLAF1 and PNN. Associated with spliced mRNP complexes. Interacts with HELZ2 and PPARG. Interacts with CLOCK and ARNTL/BMAL1 (By similarity). Component of the WTAP complex composed of WTAP, ZC3H13, CBLL1, KIAA1429, RBM15, BCLAF1 and THRAP3.
    SequenceCaution:
    • Sequence=AAH37554.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

neXtProt entry for THRAP3 Gene

Post-translational modifications for THRAP3 Gene

  • ADP-ribosylation during genotoxic stress promotes accumulation in nuclear speckles.
  • Ubiquitination at isoforms=558, isoforms=519, isoforms=470, and posLast=221221
  • Modification sites at PhosphoSitePlus

Other Protein References for THRAP3 Gene

No data available for DME Specific Peptides for THRAP3 Gene

Domains & Families for THRAP3 Gene

Gene Families for THRAP3 Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for THRAP3 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9Y2W1

UniProtKB/Swiss-Prot:

TR150_HUMAN :
  • Belongs to the BCLAF1/THRAP3 family.
Family:
  • Belongs to the BCLAF1/THRAP3 family.
genes like me logo Genes that share domains with THRAP3: view

Function for THRAP3 Gene

Molecular function for THRAP3 Gene

UniProtKB/Swiss-Prot Function:
Involved in pre-mRNA splicing. Remains associated with spliced mRNA after splicing which probably involves interactions with the exon junction complex (EJC). Can trigger mRNA decay which seems to be independent of nonsense-mediated decay involving premature stop codons (PTC) recognition. May be involved in nuclear mRNA decay. Involved in regulation of signal-induced alternative splicing. During splicing of PTPRC/CD45 is proposed to sequester phosphorylated SFPQ from PTPRC/CD45 pre-mRNA in resting T-cells. Involved in cyclin-D1/CCND1 mRNA stability probably by acting as component of the SNARP complex which associates with both the 3end of the CCND1 gene and its mRNA. Involved in response to DNA damage. Is excluced from DNA damage sites in a manner that parallels transcription inhibition; the function may involve the SNARP complex. Initially thought to play a role in transcriptional coactivation through its association with the TRAP complex; however, it is not regarded as a stable Mediator complex subunit. Cooperatively with HELZ2, enhances the transcriptional activation mediated by PPARG, maybe through the stabilization of the PPARG binding to DNA in presence of ligand. May play a role in the terminal stage of adipocyte differentiation. Plays a role in the positive regulation of the circadian clock. Acts as a coactivator of the CLOCK-ARNTL/BMAL1 heterodimer and promotes its transcriptional activator activity and binding to circadian target genes (PubMed:24043798).

Phenotypes From GWAS Catalog for THRAP3 Gene

Gene Ontology (GO) - Molecular Function for THRAP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001046 core promoter sequence-specific DNA binding ISS --
GO:0003712 transcription coregulator activity IDA 12218053
GO:0003713 transcription coactivator activity IDA 12037571
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 15324660
genes like me logo Genes that share ontologies with THRAP3: view
genes like me logo Genes that share phenotypes with THRAP3: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for THRAP3 Gene

Localization for THRAP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for THRAP3 Gene

Nucleus. Nucleus, nucleoplasm. Nucleus speckle.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for THRAP3 gene
Compartment Confidence
extracellular 5
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for THRAP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IEA 10235267
GO:0005654 nucleoplasm IEA,IDA 24100041
GO:0016592 mediator complex IDA 10198638
GO:0016607 nuclear speck IDA,IEA 24100041
GO:0035145 colocalizes_with exon-exon junction complex IDA 20123736
genes like me logo Genes that share ontologies with THRAP3: view

Pathways & Interactions for THRAP3 Gene

genes like me logo Genes that share pathways with THRAP3: view

SIGNOR curated interactions for THRAP3 Gene

Inactivates:

Gene Ontology (GO) - Biological Process for THRAP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000381 regulation of alternative mRNA splicing, via spliceosome IMP 20932480
GO:0000956 nuclear-transcribed mRNA catabolic process IDA 20123736
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006367 transcription initiation from RNA polymerase II promoter IDA 12218053
genes like me logo Genes that share ontologies with THRAP3: view

Drugs & Compounds for THRAP3 Gene

No Compound Related Data Available

Transcripts for THRAP3 Gene

Unigene Clusters for THRAP3 Gene

Thyroid hormone receptor associated protein 3:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for THRAP3 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11a · 11b ^ 12 ^ 13 ^ 14 ^ 15 ^ 16
SP1:
SP2:
SP3: - - -
SP4:
SP5:
SP6: - - - -
SP7: - -
SP8: -

Relevant External Links for THRAP3 Gene

GeneLoc Exon Structure for
THRAP3
ECgene alternative splicing isoforms for
THRAP3

Expression for THRAP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for THRAP3 Gene

Protein differential expression in normal tissues from HIPED for THRAP3 Gene

This gene is overexpressed in Nasal epithelium (14.3) and Peripheral blood mononuclear cells (12.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for THRAP3 Gene



Protein tissue co-expression partners for THRAP3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of THRAP3 Gene:

THRAP3

SOURCE GeneReport for Unigene cluster for THRAP3 Gene:

Hs.744057

mRNA Expression by UniProt/SwissProt for THRAP3 Gene:

Q9Y2W1-TR150_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for THRAP3 Gene

  • Liver(4.4)
  • Nervous system(4.4)
  • Blood(4.1)
  • Muscle(2.1)
  • Spleen(2)
genes like me logo Genes that share expression patterns with THRAP3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for THRAP3 Gene

Orthologs for THRAP3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for THRAP3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia THRAP3 34 33
  • 99.65 (n)
OneToOne
cow
(Bos Taurus)
Mammalia THRAP3 34 33
  • 93.36 (n)
OneToOne
dog
(Canis familiaris)
Mammalia THRAP3 34 33
  • 93.25 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Thrap3 33
  • 89.46 (n)
mouse
(Mus musculus)
Mammalia Thrap3 16 34 33
  • 89.24 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia THRAP3 34
  • 88 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 79 (a)
OneToMany
-- 34
  • 69 (a)
OneToMany
chicken
(Gallus gallus)
Aves THRAP3 34 33
  • 75.41 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia THRAP3 34
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia thrap3 33
  • 63.29 (n)
LOC394509 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.7745 33
zebrafish
(Danio rerio)
Actinopterygii thrap3b 34
  • 40 (a)
OneToMany
BX321921.1 34
  • 39 (a)
OneToMany
thrap3a 34
  • 38 (a)
OneToMany
-- 33
Species where no ortholog for THRAP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for THRAP3 Gene

ENSEMBL:
Gene Tree for THRAP3 (if available)
TreeFam:
Gene Tree for THRAP3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for THRAP3: view image

Paralogs for THRAP3 Gene

Paralogs for THRAP3 Gene

(1) SIMAP similar genes for THRAP3 Gene using alignment to 6 proteins:

  • TR150_HUMAN
  • E9PML1_HUMAN
  • Q05D20_HUMAN
  • Q6P0P7_HUMAN
  • Q6PJV4_HUMAN
  • Q7Z5U1_HUMAN

Pseudogenes.org Pseudogenes for THRAP3 Gene

genes like me logo Genes that share paralogs with THRAP3: view

Variants for THRAP3 Gene

Sequence variations from dbSNP and Humsavar for THRAP3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000010642 -- 36,274,430(+) C/G genic_upstream_transcript_variant, intron_variant
rs1000050607 -- 36,250,195(+) C/T genic_upstream_transcript_variant, intron_variant
rs1000079332 -- 36,280,835(+) C/T genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000130909 -- 36,241,049(+) A/C genic_upstream_transcript_variant, intron_variant
rs1000132971 -- 36,239,463(+) C/T genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for THRAP3 Gene

Variant ID Type Subtype PubMed ID
dgv74n106 OTHER inversion 24896259
esv1002750 CNV deletion 20482838
esv1414937 CNV deletion 17803354
esv2045078 CNV deletion 18987734
esv2125715 CNV deletion 18987734
esv2544592 CNV deletion 19546169
esv2663119 CNV deletion 23128226
esv2746830 CNV deletion 23290073
esv2746841 CNV deletion 23290073
esv2746852 CNV deletion 23290073
esv2746863 CNV deletion 23290073
esv2758931 CNV loss 17122850
esv3560737 CNV deletion 23714750
esv3560748 CNV deletion 23714750
esv3585731 CNV loss 21293372
nsv1077758 OTHER inversion 25765185
nsv1122329 CNV deletion 24896259
nsv1133839 CNV deletion 24896259
nsv160040 CNV deletion 16902084
nsv444 CNV deletion 18451855
nsv545994 CNV loss 21841781
nsv545995 CNV loss 21841781
nsv545997 CNV loss 21841781
nsv834691 CNV loss 17160897
nsv834702 CNV loss 17160897
nsv945880 CNV duplication 23825009
nsv945882 CNV duplication 23825009
nsv955436 CNV deletion 24416366
nsv956790 CNV deletion 24416366

Variation tolerance for THRAP3 Gene

Residual Variation Intolerance Score: 10% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.79; 47.39% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for THRAP3 Gene

Human Gene Mutation Database (HGMD)
THRAP3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
THRAP3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for THRAP3 Gene

Disorders for THRAP3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for THRAP3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
wilms tumor 1
  • wt1
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for THRAP3

genes like me logo Genes that share disorders with THRAP3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for THRAP3 Gene

Publications for THRAP3 Gene

  1. THRAP3 interacts with HELZ2 and plays a novel role in adipocyte differentiation. (PMID: 23525231) Katano-Toki A … Mori M (Molecular endocrinology (Baltimore, Md.) 2013) 3 4 58
  2. A positive feedback loop links circadian clock factor CLOCK-BMAL1 to the basic transcriptional machinery. (PMID: 24043798) Lande-Diner L … Weitz CJ (Proceedings of the National Academy of Sciences of the United States of America 2013) 3 4 58
  3. Proteome-wide identification of poly(ADP-Ribosyl)ation targets in different genotoxic stress responses. (PMID: 24055347) Jungmichel S … Nielsen ML (Molecular cell 2013) 3 4 58
  4. Identification of Wilms' tumor 1-associating protein complex and its role in alternative splicing and the cell cycle. (PMID: 24100041) Horiuchi K … Hamakubo T (The Journal of biological chemistry 2013) 3 4 58
  5. Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response. (PMID: 22424773) Beli P … Choudhary C (Molecular cell 2012) 3 4 58

Products for THRAP3 Gene

Sources for THRAP3 Gene