Trim50 tripartite motif-containing 50 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trim50provided by RGD
Official Full Name: tripartite motif-containing 50provided by RGD
Primary source: RGD:631346
See related: EnsemblRapid:ENSRNOG00000022483 AllianceGenome:RGD:631346
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable identical protein binding activity and ubiquitin protein ligase activity. Predicted to be involved in innate immune response. Predicted to act upstream of or within regulation of establishment of protein localization. Predicted to be located in aggresome and cytosol. Predicted to be active in cytoplasm. Orthologous to several human genes including TRIM50 (tripartite motif containing 50). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 63.8) and Testes (RPKM 11.6) See more
Orthologs: human mouse all
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Genomic context

Location:: 12q12

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (26937349..26954286, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (21300784..21317668, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (24348426..24365467, complement)

Chromosome 12 - NC_086030.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TRIM50 protein regulates vesicular trafficking for acid secretion in gastric parietal cells
Title: TRIM50 protein regulates vesicular trafficking for acid secretion in gastric parietal cells.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in innate immune response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of establishment of protein localization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in aggresome	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM50

Names: RING-type E3 ubiquitin transferase TRIM50; tripartite motif protein 50; tripartite motif-containing protein 50

NP_001400169.1

EC 2.3.2.27

NP_851594.1

EC 2.3.2.27

XP_063127224.1

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_001413240.1 → NP_001400169.1 E3 ubiquitin-protein ligase TRIM50 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

UniProtKB/TrEMBL

Q5U366

Related

ENSRNOP00000036145.4, ENSRNOT00000032250.6
NM_181080.2 → NP_851594.1 E3 ubiquitin-protein ligase TRIM50 isoform 1

See identical proteins and their annotated locations for NP_851594.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

UniProtKB/Swiss-Prot

Q810I1

UniProtKB/TrEMBL

A6J0D3

Conserved Domains (4) summary

smart00502
Location:134 → 225

BBC; B-Box C-terminal domain

cd13743
Location:282 → 470

SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)

cd16605
Location:14 → 58

RING-HC_TRIM50_like_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein TRIM50, TRIM73, TRIM74 and similar proteins

cl00034
Location:88 → 125

Bbox_SF; B-box-type zinc finger superfamily