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THRAP3 thyroid hormone receptor associated protein 3 [ Homo sapiens (human) ]

Gene ID: 9967, updated on 7-Apr-2024

Summary

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Official Symbol
THRAP3provided by HGNC
Official Full Name
thyroid hormone receptor associated protein 3provided by HGNC
Primary source
HGNC:HGNC:22964
See related
Ensembl:ENSG00000054118 MIM:603809; AllianceGenome:HGNC:22964
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BCLAF2; TRAP150
Summary
Enables phosphoprotein binding activity; thyroid hormone receptor binding activity; and transcription coactivator activity. Involved in nuclear-transcribed mRNA catabolic process; positive regulation of circadian rhythm; and regulation of RNA metabolic process. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in nuclear speck. Part of mediator complex. Colocalizes with exon-exon junction complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in lymph node (RPKM 27.3), thyroid (RPKM 26.7) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
1p34.3
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (36207637..36305357)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (36070513..36168203)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (36690044..36770958)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 655 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 656 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36625977-36626754 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 745 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 746 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:36638149-36639348 Neighboring gene MAP7 domain containing 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 657 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36643121-36643768 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36643769-36644414 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36644415-36645060 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36653458-36654156 Neighboring gene RNA, 7SL, cytoplasmic 131, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr1:36680691-36680811 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 747 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:36689434-36689961 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:36689962-36690490 Neighboring gene Sharpr-MPRA regulatory regions 10257 and 14041 Neighboring gene ubiquitin conjugating enzyme E2 V2 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 659 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:36726300-36726456 Neighboring gene Sharpr-MPRA regulatory region 2392 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 660 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36772217-36773017 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36786744-36787628 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36788515-36789399 Neighboring gene SH3 domain containing 21 Neighboring gene eva-1 homolog B Neighboring gene ATAC-STARR-seq lymphoblastoid active region 751 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36823274-36823774 Neighboring gene serine/threonine kinase 40 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36834695-36835363 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36835364-36836031 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36837681-36838244 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:36838245-36838808 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:36839045-36840244 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:36844393-36844892 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 666 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 667 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 668

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response. Beli P, et al. Mol Cell, 2012 Apr 27. PMID 22424773, Free PMC Article
  2. Thrap3 promotes osteogenesis by inhibiting the degradation of Runx2. Zhou L, et al. FASEB J, 2022 Apr. PMID 35230719
  3. Thrap3 promotes R-loop resolution via interaction with methylated DDX5. Kang HJ, et al. Exp Mol Med, 2021 Oct. PMID 34697388, Free PMC Article
  4. The RNA processing factors THRAP3 and BCLAF1 promote the DNA damage response through selective mRNA splicing and nuclear export. Vohhodina J, et al. Nucleic Acids Res, 2017 Dec 15. PMID 29112714, Free PMC Article
  5. TRAP150 interacts with the RNA-binding domain of PSF and antagonizes splicing of numerous PSF-target genes in T cells. Yarosh CA, et al. Nucleic Acids Res, 2015 Oct 15. PMID 26261210, Free PMC Article

See all (214) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Thrap3 promotes nonalcoholic fatty liver disease by suppressing AMPK-mediated autophagy.
    Title: Thrap3 promotes nonalcoholic fatty liver disease by suppressing AMPK-mediated autophagy.
  2. Thrap3 promotes R-loop resolution via interaction with methylated DDX5.
    Title: Thrap3 promotes R-loop resolution via interaction with methylated DDX5.
  3. Thrap3 promotes osteogenesis by inhibiting the degradation of Runx2.
    Title: Thrap3 promotes osteogenesis by inhibiting the degradation of Runx2.
  4. These results indicate that THRAP3 negatively regulates SOX9 transcriptional activity as a cofactor of a SOX9 transcriptional complex during chondrogenesis.
    Title: THRAP3 interacts with and inhibits the transcriptional activity of SOX9 during chondrogenesis.
  5. Results indicate a role for the RNA processing factors THRAP3 and BCLAF1 in the regulation of the cellular DNA damage response (DDR) pathway.
    Title: The RNA processing factors THRAP3 and BCLAF1 promote the DNA damage response through selective mRNA splicing and nuclear export.
  6. The data suggest a model in which TRAP150 interacts with dimeric PSF to block access of RNA to RRM2, thereby regulating the activity of PSF toward a broad set of splicing events in T cells.
    Title: TRAP150 interacts with the RNA-binding domain of PSF and antagonizes splicing of numerous PSF-target genes in T cells.
  7. Thrap3 plays a crucial role in controlling diabetic gene programming and may provide opportunities for the development of new therapeutics for obesity and type 2 diabetes.
    Title: Thrap3 docks on phosphoserine 273 of PPARγ and controls diabetic gene programming.
  8. BTF has functions distinct from TRAP150 in regulating the subcellular distribution of mRNAs in human cells.
    Title: Btf and TRAP150 have distinct roles in regulating subcellular mRNA distribution.
  9. Thrap3 could play indispensable roles in terminal differentiation of adipocytes by enhancing PPARgamma-mediated gene activation cooperatively with Helz2.
    Title: THRAP3 interacts with HELZ2 and plays a novel role in adipocyte differentiation.
  10. Data indicate that distinct differences in proteins becoming Poly(ADP-ribose) PARylated upon various genotoxic insults are observed, exemplified by the PARylation of RNA-processing factors THRAP3 and TAF15 under oxidative stress.
    Title: Proteome-wide identification of poly(ADP-Ribosyl)ation targets in different genotoxic stress responses.
Submit: New GeneRIF Correction See all GeneRIFs (12)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag HIV-1 Gag is identified to have a physical interaction with thyroid hormone receptor associated protein 3 (THRAP3) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed
integrase gag-pol Using acetylated HIV-1 IN as bait in yeast two-hybrid screening identifies transcription regulatory and chromatin remodeling factors LEDGF/p75, KAP1, BTF3b, THRAP3, and HMGN2 as IN-binding partners PubMed
retropepsin gag-pol Positional proteomics analysis identifies the cleavage of human thyroid hormone receptor associated protein 3 (THRAP3) at amino acid residues 473-474 by the HIV-1 protease PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ22082, MGC133082, MGC133083

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding HDA PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables nuclear receptor coactivator activity NAS
Non-traceable Author Statement
more info
 PubMed 
enables nuclear thyroid hormone receptor binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables nuclear vitamin D receptor binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables phosphoprotein binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription coactivator activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription coregulator activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in circadian rhythm IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA stabilization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in nuclear-transcribed mRNA catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of alternative mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of exon-exon junction complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in extracellular exosome HDA PubMed 
part_of mediator complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of mediator complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nuclear speck IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
thyroid hormone receptor-associated protein 3
Names
BCLAF1 and THRAP3 family member 2
TR-associated protein, 150-kDa
thyroid hormone receptor-associated protein complex 150 kDa component
thyroid hormone receptor-associated protein, 150 kDa subunit

NCBI Reference Sequences (RefSeq)

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NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001321471.2 → NP_001308400.1  thyroid hormone receptor-associated protein 3 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AC114484, AI754117, AK025735, BC112350, HY001123
    Consensus CDS
    CCDS405.1
    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1
    UniProtKB/TrEMBL
    A0A3B3ITZ9
    Related
    ENSP00000433825.1, ENST00000469141.6
    Conserved Domains (1) summary
    pfam15440
    Location:191 → 769
    THRAP3_BCLAF1; THRAP3/BCLAF1 family

  2. NM_001321473.2 → NP_001308402.1  thyroid hormone receptor-associated protein 3 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AI754117, AK025735, BC112330, HY001123
    UniProtKB/TrEMBL
    A0A3B3ITZ9
    Conserved Domains (1) summary
    pfam15440
    Location:191 → 769
    THRAP3_BCLAF1; THRAP3/BCLAF1 family

  3. NM_005119.4 → NP_005110.2  thyroid hormone receptor-associated protein 3 isoform 1

    See identical proteins and their annotated locations for NP_005110.2

    Status: VALIDATED

    Source sequence(s)
    AI754117, AK025735, BC112350, BG572651
    Consensus CDS
    CCDS405.1
    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1
    UniProtKB/TrEMBL
    A0A3B3ITZ9
    Related
    ENSP00000346634.5, ENST00000354618.10
    Conserved Domains (1) summary
    pfam15440
    Location:191 → 769
    THRAP3_BCLAF1; THRAP3/BCLAF1 family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    36207637..36305357
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047436227.1 → XP_047292183.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  2. XM_047436226.1 → XP_047292182.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  3. XM_047436246.1 → XP_047292202.1  thyroid hormone receptor-associated protein 3 isoform X2

  4. XM_047436215.1 → XP_047292171.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  5. XM_047436245.1 → XP_047292201.1  thyroid hormone receptor-associated protein 3 isoform X2

  6. XM_047436212.1 → XP_047292168.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1
    Related
    ENSP00000498001.1, ENST00000648638.1

  7. XM_047436243.1 → XP_047292199.1  thyroid hormone receptor-associated protein 3 isoform X2

  8. XM_047436222.1 → XP_047292178.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  9. XM_047436252.1 → XP_047292208.1  thyroid hormone receptor-associated protein 3 isoform X2

  10. XM_047436233.1 → XP_047292189.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  11. XM_047436218.1 → XP_047292174.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  12. XM_047436250.1 → XP_047292206.1  thyroid hormone receptor-associated protein 3 isoform X2

  13. XM_047436232.1 → XP_047292188.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  14. XM_047436254.1 → XP_047292210.1  thyroid hormone receptor-associated protein 3 isoform X2

  15. XM_047436271.1 → XP_047292227.1  thyroid hormone receptor-associated protein 3 isoform X3

RNA

  1. XR_007065302.1 RNA Sequence

  2. XR_007065301.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    36070513..36168203
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054339973.1 → XP_054195948.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  2. XM_054339972.1 → XP_054195947.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  3. XM_054339978.1 → XP_054195953.1  thyroid hormone receptor-associated protein 3 isoform X2

  4. XM_054339969.1 → XP_054195944.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  5. XM_054339977.1 → XP_054195952.1  thyroid hormone receptor-associated protein 3 isoform X2

  6. XM_054339968.1 → XP_054195943.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  7. XM_054339976.1 → XP_054195951.1  thyroid hormone receptor-associated protein 3 isoform X2

  8. XM_054339971.1 → XP_054195946.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  9. XM_054339980.1 → XP_054195955.1  thyroid hormone receptor-associated protein 3 isoform X2

  10. XM_054339975.1 → XP_054195950.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  11. XM_054339970.1 → XP_054195945.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  12. XM_054339979.1 → XP_054195954.1  thyroid hormone receptor-associated protein 3 isoform X2

  13. XM_054339974.1 → XP_054195949.1  thyroid hormone receptor-associated protein 3 isoform X1

    UniProtKB/Swiss-Prot
    D3DPS5, Q5VTK6, Q9Y2W1

  14. XM_054339981.1 → XP_054195956.1  thyroid hormone receptor-associated protein 3 isoform X2

  15. XM_054339982.1 → XP_054195957.1  thyroid hormone receptor-associated protein 3 isoform X3

RNA

  1. XR_008486223.1 RNA Sequence

  2. XR_008486222.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9Y2W1.2 GenPept UniProtKB/Swiss-Prot:Q9Y2W1

Gene LinkOut

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