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TRIM47 tripartite motif containing 47 [ Homo sapiens (human) ]

Gene ID: 91107, updated on 5-Nov-2023

Summary

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Official Symbol
TRIM47provided by HGNC
Official Full Name
tripartite motif containing 47provided by HGNC
Primary source
HGNC:HGNC:19020
See related
Ensembl:ENSG00000132481 MIM:611041; AllianceGenome:HGNC:19020
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
GOA; RNF100
Summary
Enables ubiquitin-protein transferase activity. Involved in protein ubiquitination. Located in cytosol. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 11.4), kidney (RPKM 8.9) and 24 other tissues See more
Orthologs
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Genomic context

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See TRIM47 in Genome Data Viewer
Location:
17q25.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (75874164..75878581, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (76767314..76771775, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (73870245..73874662, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73825830-73826818 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73826819-73827806 Neighboring gene unc-13 homolog D Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:73831316-73831816 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:73832318-73833318 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:73834667-73835166 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:73840002-73840706 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8988 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12779 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12780 Neighboring gene WW domain binding protein 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12781 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8989 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:73852240-73853035 Neighboring gene Sharpr-MPRA regulatory region 12387 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:73861034-73861534 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73864718-73865644 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:73872205-73873120 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73873121-73874036 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73874037-73874952 Neighboring gene tripartite motif containing 65 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73892749-73893458 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:73893459-73894166 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8995 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8996 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8997 Neighboring gene mitochondrial ribosomal protein L38

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. TRIM47 promotes ovarian cancer cell proliferation, migration, and invasion by activating STAT3 signaling. Wang X, et al. Clinics (Sao Paulo), 2022. PMID 36288633, Free PMC Article
  2. TRIM47 activates NF-κB signaling via PKC-ε/PKD3 stabilization and contributes to endocrine therapy resistance in breast cancer. Azuma K, et al. Proc Natl Acad Sci U S A, 2021 Aug 31. PMID 34433666, Free PMC Article
  3. Upregulated Tripartite Motif 47 Could Facilitate Glioma Cell Proliferation and Metastasis as a Tumorigenesis Promoter. Ji B, et al. Comput Math Methods Med, 2021. PMID 33833824, Free PMC Article
  4. Trim47 overexpression correlates with poor prognosis in gastric cancer. Xia Y, et al. Neoplasma, 2021 Mar. PMID 33350849
  5. Knockdown of TRIM47 inhibits glioma cell proliferation, migration and invasion through the inactivation of Wnt/β-catenin pathway. Chen L, et al. Mol Cell Probes, 2020 Oct. PMID 32603762

See all (41) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TRIM47 promotes glioma angiogenesis by suppressing Smad4.
    Title: TRIM47 promotes glioma angiogenesis by suppressing Smad4.
  2. TRIM47 promotes ovarian cancer cell proliferation, migration, and invasion by activating STAT3 signaling.
    Title: TRIM47 promotes ovarian cancer cell proliferation, migration, and invasion by activating STAT3 signaling.
  3. TRIM47 accelerates aerobic glycolysis and tumor progression through regulating ubiquitination of FBP1 in pancreatic cancer.
    Title: TRIM47 accelerates aerobic glycolysis and tumor progression through regulating ubiquitination of FBP1 in pancreatic cancer.
  4. TRIM47 activates NF-kappaB signaling via PKC-epsilon/PKD3 stabilization and contributes to endocrine therapy resistance in breast cancer.
    Title: TRIM47 activates NF-κB signaling via PKC-ε/PKD3 stabilization and contributes to endocrine therapy resistance in breast cancer.
  5. Upregulated Tripartite Motif 47 Could Facilitate Glioma Cell Proliferation and Metastasis as a Tumorigenesis Promoter.
    Title: Upregulated Tripartite Motif 47 Could Facilitate Glioma Cell Proliferation and Metastasis as a Tumorigenesis Promoter.
  6. Knockdown of TRIM47 inhibits glioma cell proliferation, migration and invasion through the inactivation of Wnt/beta-catenin pathway.
    Title: Knockdown of TRIM47 inhibits glioma cell proliferation, migration and invasion through the inactivation of Wnt/β-catenin pathway.
  7. Trim47 overexpression correlates with poor prognosis in gastric cancer.
    Title: Trim47 overexpression correlates with poor prognosis in gastric cancer.
  8. our study has shown the biological and clinical significance of TRIM47 in colorectal cancer. TRIM47 exerts an inhibitory effect on SMAD4 by ubiquitylating and degrading SMAD4, thereby promoting tumor growth and progression.
    Title: TRIM47 is up-regulated in colorectal cancer, promoting ubiquitination and degradation of SMAD4.
  9. Study shows that protein and gene expression level of TRIM47 are up-regulated in prostate neoplasm.
    Title: Increased Expression of Tripartite Motif (TRIM) 47 Is a Negative Prognostic Predictor in Human Prostate Cancer.
  10. High TRIM47 expression is associated with non-small cell lung carcinoma.
    Title: TRIM47 overexpression is a poor prognostic factor and contributes to carcinogenesis in non-small cell lung carcinoma.
Submit: New GeneRIF Correction See all GeneRIFs (11)

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

EBI GWAS Catalog

Description
Genome-wide association studies of cerebral white matter lesion burden: the CHARGE consortium.
EBI GWAS Catalog

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in protein ubiquitination IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
E3 ubiquitin-protein ligase TRIM47
Names
RING finger protein 100
gene overexpressed in astrocytoma protein
tripartite motif-containing protein 47
NP_258411.2
XP_005257844.1
XP_005257845.1
XP_054173709.1
XP_054173710.1

NCBI Reference Sequences (RefSeq)

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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_033452.3 → NP_258411.2  E3 ubiquitin-protein ligase TRIM47

    See identical proteins and their annotated locations for NP_258411.2

    Status: VALIDATED

    Source sequence(s)
    AC087289, AY026763, BG385464
    Consensus CDS
    CCDS32737.1
    UniProtKB/Swiss-Prot
    Q96AD0, Q96GU5, Q96LD4, Q9BRN7
    Related
    ENSP00000254816.1, ENST00000254816.6
    Conserved Domains (3) summary
    pfam00643
    Location:178 → 217
    zf-B_box; B-box zinc finger
    cd15808
    Location:421 → 626
    SPRY_PRY_TRIM47; PRY/SPRY domain in tripartite motif-containing protein 47 (TRIM47), also known as RING finger protein 100 (RNF100) or Gene overexpressed in astrocytoma protein (GOA)
    cl17238
    Location:9 → 57
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    75874164..75878581 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005257787.5 → XP_005257844.1  E3 ubiquitin-protein ligase TRIM47 isoform X1

    See identical proteins and their annotated locations for XP_005257844.1

    UniProtKB/Swiss-Prot
    Q96LD4
    Conserved Domains (1) summary
    cd15808
    Location:183 → 388
    SPRY_PRY_TRIM47; PRY/SPRY domain in tripartite motif-containing protein 47 (TRIM47), also known as RING finger protein 100 (RNF100) or Gene overexpressed in astrocytoma protein (GOA)

  2. XM_005257788.6 → XP_005257845.1  E3 ubiquitin-protein ligase TRIM47 isoform X1

    See identical proteins and their annotated locations for XP_005257845.1

    UniProtKB/Swiss-Prot
    Q96LD4
    Conserved Domains (1) summary
    cd15808
    Location:183 → 388
    SPRY_PRY_TRIM47; PRY/SPRY domain in tripartite motif-containing protein 47 (TRIM47), also known as RING finger protein 100 (RNF100) or Gene overexpressed in astrocytoma protein (GOA)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    76767314..76771775 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054317734.1 → XP_054173709.1  E3 ubiquitin-protein ligase TRIM47 isoform X1

  2. XM_054317735.1 → XP_054173710.1  E3 ubiquitin-protein ligase TRIM47 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96LD4.2 GenPept UniProtKB/Swiss-Prot:Q96LD4

Gene LinkOut

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