Traf5 TNF receptor-associated factor 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Traf5provided by RGD
Official Full Name: TNF receptor-associated factor 5provided by RGD
Primary source: RGD:1593883
See related: EnsemblRapid:ENSRNOG00000047957 AllianceGenome:RGD:1593883
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 enzyme binding activity; identical protein binding activity; and ubiquitin protein ligase activity. Predicted to be involved in cell surface receptor signaling pathway; positive regulation of canonical NF-kappaB signal transduction; and regulation of gene expression. Predicted to act upstream of or within positive regulation of cell population proliferation and signal transduction. Predicted to be located in centrosome; cytoplasmic side of plasma membrane; and cytosol. Predicted to be part of CD40 receptor complex. Predicted to be active in cytoplasm. Orthologous to human TRAF5 (TNF receptor associated factor 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 89.0), Lung (RPKM 65.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q27

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (106100921..106149724, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (103569944..103618747, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (110758556..110801871, complement)

Chromosome 13 - NC_086031.1 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?

Our data suggested that TRAF5 might play important roles in CNS pathophysiology after spinal cord injury .
Title: Spatiotemporal patterns and essential role of TNF receptor-associated factor 5 expression after rat spinal cord Injury.

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 thioesterase binding	ISO Inferred from Sequence Orthology more info
enables tumor necrosis factor receptor binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in CD40 signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in CD40 signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in interleukin-17-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in mRNA stabilization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of NF-kappaB transcription factor activity	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of NF-kappaB transcription factor activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within signal transduction	ISO Inferred from Sequence Orthology more info
involved_in signal transduction involved in regulation of gene expression	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of CD40 receptor complex	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: TNF receptor-associated factor 5

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_001398701.1 → NP_001385630.1 TNF receptor-associated factor 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A0A8I6AR28

Conserved Domains (5) summary

COG1196
Location:230 → 420

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam02176
Location:128 → 183

zf-TRAF; TRAF-type zinc finger

cd16642
Location:43 → 85

mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins

cl02446
Location:404 → 551

MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...

cl40617
Location:185 → 241

zf-TRAF; TRAF-type zinc finger
NM_001398702.1 → NP_001385631.1 TNF receptor-associated factor 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A0A8I6AR28

Related

ENSRNOP00000096919.1, ENSRNOT00000110424.2

Conserved Domains (5) summary

COG1196
Location:230 → 420

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam02176
Location:128 → 183

zf-TRAF; TRAF-type zinc finger

cd16642
Location:43 → 85

mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins

cl02446
Location:404 → 551

MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...

cl40617
Location:185 → 241

zf-TRAF; TRAF-type zinc finger

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_086031.1 Reference GRCr8

Range

106100921..106149724 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039091512.2 → XP_038947440.1 TNF receptor-associated factor 5 isoform X1

UniProtKB/TrEMBL

A0A8I6AR28, M0R7W8

Conserved Domains (5) summary

COG1196
Location:230 → 420

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam02176
Location:128 → 183

zf-TRAF; TRAF-type zinc finger

cd16642
Location:43 → 85

mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins

cl02446
Location:404 → 551

MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...

cl40617
Location:185 → 241

zf-TRAF; TRAF-type zinc finger
XM_039091513.2 → XP_038947441.1 TNF receptor-associated factor 5 isoform X1

UniProtKB/TrEMBL

A0A8I6AR28, M0R7W8

Conserved Domains (5) summary

COG1196
Location:230 → 420

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

pfam02176
Location:128 → 183

zf-TRAF; TRAF-type zinc finger

cd16642
Location:43 → 85

mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins

cl02446
Location:404 → 551

MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...

cl40617
Location:185 → 241

zf-TRAF; TRAF-type zinc finger