Trim6 tripartite motif containing 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Trim6provided by RGD
Official Full Name: tripartite motif containing 6provided by RGD
Primary source: RGD:1310896
See related: Ensembl:ENSRNOG00000017147 AllianceGenome:RGD:1310896
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 several functions, including protein homodimerization activity; protein tyrosine kinase binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including positive regulation of protein phosphorylation; positive regulation of signal transduction; and regulation of gene expression. Predicted to be located in nucleus. Predicted to be active in cytosol and nucleoplasm. Orthologous to human TRIM6 (tripartite motif containing 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 18.9), Uterus (RPKM 9.5) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q32

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (168095619..168108809)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (158683746..158696936)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (169410084..169423305)

Chromosome 1 - NC_086019.1 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?

Submit: New GeneRIF Correction

General gene information

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Markers

RH130109 (e-PCR)
- UniSTS:213397

BI280655 (e-PCR)
- UniSTS:249043

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein kinase binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein tyrosine kinase binding	ISO Inferred from Sequence Orthology more info
enables protein-macromolecule adaptor 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 zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in antiviral innate immune response	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to interferon-beta	ISO Inferred from Sequence Orthology more info
involved_in cellular response to virus	ISO Inferred from Sequence Orthology more info
involved_in free ubiquitin chain polymerization	ISO Inferred from Sequence Orthology more info
involved_in innate immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of stem cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of viral genome replication	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of NF-kappaB transcription factor activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of autophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of cytokine production involved in immune response	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of defense response to virus by host	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of peptidyl-serine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of peptidyl-threonine phosphorylation	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 K48-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein polyubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein polyubiquitination	ISO Inferred from Sequence Orthology more info
NOT involved_in regulation of non-canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein localization	IBA Inferred from Biological aspect of Ancestor more info
NOT involved_in regulation of protein stability	ISO Inferred from Sequence Orthology more info
involved_in regulation of viral entry into host cell	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in nucleoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tripartite motif-containing protein 6

Names: tripartite motif protein 6

NP_001163932.1

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_001170461.1 → NP_001163932.1 tripartite motif-containing protein 6

See identical proteins and their annotated locations for NP_001163932.1

Status: VALIDATED

Source sequence(s)

CV121315, FM029933, JAXUCZ010000001

UniProtKB/TrEMBL

A0A8I5ZYZ0, D4A3L4

Related

ENSRNOP00000023043.5, ENSRNOT00000023043.7

Conserved Domains (4) summary

TIGR02168
Location:147 → 240

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

cd15823
Location:299 → 486

SPRY_PRY_TRIM6; PRY/SPRY domain in tripartite motif-binding protein 6 (TRIM6), also known as RING finger protein 89 (RNF89)

cd16591
Location:12 → 61

RING-HC_TRIM5_like-C-IV; RING finger, HC subclass, found in tripartite motif-containing proteins TRIM5, TRIM6, TRIM22, TRIM34 and similar proteins

cd19761
Location:97 → 134

Bbox2_TRIM5-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins, TRIM5, TRIM6, TRIM22, TRIM34, TRIM38 and similar proteins