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

Summary

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 ligase activity. Involved in protein ubiquitination. Located in cytosol. [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in brain (RPKM 11.4), kidney (RPKM 8.9) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 17q25.1

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	17	NC_000017.11 (75874164..75878581, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	17	NC_060941.1 (76767314..76771775, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	17	NC_000017.10 (73870245..73874662, complement)

Chromosome 17 - NC_000017.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

White matter hyperintensity genetic risk factor TRIM47 regulates autophagy in brain endothelial cells.
Title: White matter hyperintensity genetic risk factor TRIM47 regulates autophagy in brain endothelial cells.
TRIM47-CDO1 axis dictates hepatocellular carcinoma progression by modulating ferroptotic cell death through the ubiquitin-proteasome system.
Title: TRIM47-CDO1 axis dictates hepatocellular carcinoma progression by modulating ferroptotic cell death through the ubiquitin‒proteasome system.
TRIM47 promotes glioma angiogenesis by suppressing Smad4.
Title: TRIM47 promotes glioma angiogenesis by suppressing Smad4.
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.
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.
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.
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.
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.
Trim47 overexpression correlates with poor prognosis in gastric cancer.
Title: Trim47 overexpression correlates with poor prognosis in gastric cancer.
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.

Submit: New GeneRIF Correction See all GeneRIFs (13)

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 EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase activity	IDA Inferred from Direct Assay more info	PubMed
enables ubiquitin protein ligase activity	IEA Inferred from Electronic Annotation more info
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
involved_in regulation of postsynapse assembly	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytosol	IDA Inferred from Direct Assay more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in postsynapse	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

EC 2.3.2.27

XP_005257844.1

EC 2.3.2.27

XP_005257845.1

EC 2.3.2.27

XP_054173709.1

EC 2.3.2.27

XP_054173710.1

EC 2.3.2.27

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)

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_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000017.11 Reference GRCh38.p14 Primary Assembly

Range

75874164..75878581 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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)
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)