traf6 TNF receptor-associated factor 6 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: traf6provided by ZNC
Official Full Name: TNF receptor-associated factor 6provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-5735
See related: Ensembl:ENSDARG00000028058 AllianceGenome:ZFIN:ZDB-GENE-030131-5735
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fi15f02; zgc:63704; wu:fi15f02
Summary: Predicted to enable tumor necrosis factor receptor superfamily binding activity and ubiquitin protein ligase activity. Acts upstream of or within several processes, including innate immune response; positive regulation of transcription, DNA-templated; and response to virus. Predicted to be located in cytoplasm. Is expressed in several structures, including bone tissue; central nervous system; heart; immune system; and liver. Orthologous to human TRAF6 (TNF receptor associated factor 6). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 7

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	7	NC_007118.7 (48722838..48738718, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (48450062..48465942, complement)

Chromosome 7 - NC_007118.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Regulation of TRAF6 by MicroRNA-146a in Zebrafish Embryos after Exposure to Di(2-Ethylhexyl) Phthalate at Different Concentrations.
Title: Regulation of TRAF6 by MicroRNA-146a in Zebrafish Embryos after Exposure to Di(2-Ethylhexyl) Phthalate at Different Concentrations.
we have now analyzed the in vivo function of Traf6 in the innate immune response without interference of adaptive immunity
Title: Transcriptome analysis of Traf6 function in the innate immune response of zebrafish embryos.
Full-length traf6 was functionally characterized.
Title: Functional characterization of full-length TLR3, IRAK-4, and TRAF6 in zebrafish (Danio rerio).

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables tumor necrosis factor receptor binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	IEA Inferred from Electronic Annotation 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 innate immune response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within innate immune response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in lipopolysaccharide-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within non-canonical NF-kappaB signal transduction	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of NF-kappaB transcription factor activity	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein K63-linked ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein K63-linked ubiquitination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein ubiquitination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of canonical NF-kappaB signal transduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to bacterium	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within response to virus	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within signal transduction	IEA Inferred from Electronic Annotation more info
involved_in tumor necrosis factor-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cell cortex	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in lipid droplet	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of plasma membrane signaling receptor complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: TNF receptor-associated factor 6

Names: E3 ubiquitin-protein ligase TRAF6; RING-type E3 ubiquitin transferase TRAF6

NP_001038217.1

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_001044752.1 → NP_001038217.1 TNF receptor-associated factor 6

See identical proteins and their annotated locations for NP_001038217.1

Status: PROVISIONAL

Source sequence(s)

AL929208

UniProtKB/Swiss-Prot

Q1MTB3, Q6IWL4, Q7SXX1

Related

ENSDARP00000036715.4, ENSDART00000038273.6

Conserved Domains (3) summary

smart00184
Location:71 → 108

RING; Ring finger

cd03776
Location:375 → 521

MATH_TRAF6; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter ...

pfam02176
Location:205 → 262

zf-TRAF; TRAF-type zinc finger