Trim41 tripartite motif-containing 41 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trim41provided by RGD
Official Full Name: tripartite motif-containing 41provided by RGD
Primary source: RGD:1308885
See related: EnsemblRapid:ENSRNOG00000002388 AllianceGenome:RGD:1308885
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 several processes, including cellular response to lipopolysaccharide; cellular response to muramyl dipeptide; and positive regulation of DNA-binding transcription factor activity. Predicted to be located in nucleolus. Predicted to be active in cytoplasm and nuclear body. Orthologous to human TRIM41 (tripartite motif containing 41). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 79.2), Spleen (RPKM 70.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q21

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (33676348..33687432, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (33175213..33186472, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (34155515..34166599, complement)

Chromosome 10 - NC_086028.1 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 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?

RINCK is an E3 ligase that specifically recognizes the C1 domain of PKC isoforms
Title: Amplitude control of protein kinase C by RINCK, a novel E3 ubiquitin ligase.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
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 ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to muramyl dipeptide	ISO Inferred from Sequence Orthology more info
involved_in defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of type I interferon-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in protein monoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nuclear body	IBA Inferred from Biological aspect of Ancestor more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRIM41

Names: tripartite motif protein 41

NP_001128209.1

EC 2.3.2.27

XP_038941847.1

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_001134737.1 → NP_001128209.1 E3 ubiquitin-protein ligase TRIM41

Status: VALIDATED

Source sequence(s)

AW434688, BC168206, BP492647, CB615599, CB714434, CB784926, DY315972

UniProtKB/TrEMBL

A0A8I6AF80

Related

ENSRNOP00000003246.6, ENSRNOT00000003246.6

Conserved Domains (4) summary

cd00021
Location:224 → 261

BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.

cd13741
Location:430 → 628

SPRY_PRY_TRIM41; PRY/SPRY domain in tripartite motif-binding protein 41 (TRIM41)

cl00459
Location:284 → 379

MIT_CorA-like; metal ion transporter CorA-like divalent cation transporter superfamily

cl17238
Location:20 → 48

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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

33676348..33687432 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039085919.2 → XP_038941847.1 E3 ubiquitin-protein ligase TRIM41 isoform X1

Conserved Domains (3) summary

TIGR02169
Location:247 → 381

SMC_prok_A; chromosome segregation protein SMC, primarily archaeal type

cd16602
Location:16 → 48

RING-HC_TRIM41_like_C-IV; RING finger, HC subclass, found in tripartite motif-containing proteins TRIM41, TRIM52 and similar proteins

cd19760
Location:223 → 261

Bbox2_TRIM4-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins, TRIM4, TRIM17, TRIM41, TRIM52 and similar proteins