Trim71 tripartite motif containing 71 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trim71provided by RGD
Official Full Name: tripartite motif containing 71provided by RGD
Primary source: RGD:1566388
See related: AllianceGenome:RGD:1566388
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1566388
Summary: Predicted to enable miRNA binding activity; translation repressor activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including G1/S transition of mitotic cell cycle; negative regulation of gene expression; and protein ubiquitination. Predicted to act upstream of with a positive effect on post-transcriptional regulation of gene expression. Predicted to act upstream of or within neural tube closure; positive regulation of miRNA-mediated gene silencing; and regulation of protein metabolic process. Predicted to be located in P-body. Human ortholog(s) of this gene implicated in hydrocephalus. Orthologous to human TRIM71 (tripartite motif containing 71). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 15.7), Testes (RPKM 10.4) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q32

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (123076499..123129016, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (114193439..114250807, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (122553015..122604787, complement)

Chromosome 8 - NC_086026.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables miRNA binding	ISO Inferred from Sequence Orthology more info
enables miRNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables translation repressor activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in 3'-UTR-mediated mRNA destabilization	ISO Inferred from Sequence Orthology more info
involved_in G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in G1/S transition of mitotic cell cycle	ISS Inferred from Sequence or Structural Similarity more info
involved_in fibroblast growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in fibroblast growth factor receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in miRNA processing	ISO Inferred from Sequence Orthology more info
involved_in miRNA processing	ISS Inferred from Sequence or Structural Similarity more info
involved_in miRNA-mediated gene silencing by inhibition of translation	ISO Inferred from Sequence Orthology more info
involved_in miRNA-mediated gene silencing by inhibition of translation	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube closure	ISO Inferred from Sequence Orthology more info
involved_in neural tube development	ISO Inferred from Sequence Orthology more info
involved_in neural tube development	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within positive regulation of miRNA-mediated gene silencing	ISO Inferred from Sequence Orthology more info
acts_upstream_of_positive_effect post-transcriptional regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_positive_effect post-transcriptional regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein autoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein autoubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein polyubiquitination	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of miRNA-mediated gene silencing	ISO Inferred from Sequence Orthology more info
involved_in regulation of neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in regulation of neural precursor cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within regulation of protein metabolic process	ISO Inferred from Sequence Orthology more info
involved_in stem cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in stem cell proliferation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in P-body	ISO Inferred from Sequence Orthology more info
located_in P-body	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM71

Names: B-box zinc finger, Filamin and NHL repeat containing protein (123.8 kD) (lin-41); Drosophila dappled/ vertebrate TRipartite Motif protein related; RING-type E3 ubiquitin transferase TRIM71; protein lin-41 homolog; tripartite motif containing 71, E3 ubiquitin protein ligase; tripartite motif-containing protein 71

NP_001178730.1

EC 2.3.2.27

XP_038937222.1

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_001191801.1 → NP_001178730.1 E3 ubiquitin-protein ligase TRIM71

See identical proteins and their annotated locations for NP_001178730.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000008

UniProtKB/Swiss-Prot

D3ZVM4

Conserved Domains (7) summary

smart00557
Location:471 → 568

IG_FLMN; Filamin-type immunoglobulin domains

cd00162
Location:57 → 97

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 ...

cd14954
Location:571 → 855

NHL_TRIM71_like; NHL repeat domain of the tripartite motif-containing protein 71 (TRIM71) and related proteins

pfam00630
Location:469 → 564

Filamin; Filamin/ABP280 repeat

pfam00643
Location:265 → 298

zf-B_box; B-box zinc finger

sd00039
Location:691 → 727

7WD40; WD40 repeat [structural motif]

cl23765
Location:301 → 431

iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

123076499..123129016 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039081294.2 → XP_038937222.1 E3 ubiquitin-protein ligase TRIM71 isoform X1

UniProtKB/TrEMBL

A6I3N8

Conserved Domains (4) summary

smart00502
Location:2 → 90

BBC; B-Box C-terminal domain

cd14954
Location:230 → 514

NHL_TRIM71_like; NHL repeat domain of the tripartite motif-containing protein 71 (TRIM71) and related proteins

sd00039
Location:350 → 386

7WD40; WD40 repeat [structural motif]

pfam00630
Location:128 → 223

Filamin; Filamin/ABP280 repeat