tnfb tumor necrosis factor b (TNF superfamily, member 2) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: tnfbprovided by ZNC
Official Full Name: tumor necrosis factor b (TNF superfamily, member 2)provided by ZNC
Primary source: ZFIN:ZDB-GENE-050601-2
See related: Ensembl:ENSDARG00000013598 AllianceGenome:ZFIN:ZDB-GENE-050601-2
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: tnf; Tnf-alpha; tnfa-like
Summary: Predicted to enable cytokine activity. Acts upstream of or within defense response to bacterium; immune response; and liver development. Predicted to be located in membrane. Predicted to be active in extracellular space. Is expressed in several structures, including digestive system; heart; male organism; musculature system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); autoimmune disease (multiple); eye disease (multiple); lung disease (multiple); and skin disease (multiple). Orthologous to several human genes including LTA (lymphotoxin alpha). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 15

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	15	NC_007126.7 (34699593..34702646)
105	previous assembly	GRCz10 (GCF_000002035.5)	15	NC_007126.6 (34841624..34844677)

Chromosome 15 - NC_007126.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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?

The results reveal a crucial role for TNFalpha/TNFR2 axis in the protection of the skin against DUOX1-mediated oxidative stress.
Title: Tnfa signaling through tnfr2 protects skin against oxidative stress-induced inflammation.
TNF alpha is the first molecule identified that is produced by dying retinal neurons and is necessary to induce Muller glia to proliferate in the zebrafish retinal regeneration response.
Title: Tumor necrosis factor-alpha is produced by dying retinal neurons and is required for Muller glia proliferation during zebrafish retinal regeneration.
The data suggest that Mycobacterium marinum SecA2 modulates adaptive immunity to promote granuloma stability, perhaps through induction of tumor necrosis factor alpha.
Title: Mycobacterium marinum SecA2 promotes stable granulomas and induces tumor necrosis factor alpha in vivo.
The main proinflammatory effects of fish TNF-alpha are mediated through the activation of endothelial cells and point to the complexity of the evolution that has taken place in the regulation of innate immunity by cytokines.
Title: Evolution of the inflammatory response in vertebrates: fish TNF-alpha is a powerful activator of endothelial cells but hardly activates phagocytes.
TNF is not required for tuberculous granuloma formation, but maintains granuloma integrity indirectly by restricting mycobacterial growth within macrophages and preventing their necrosis.
Title: Tumor necrosis factor signaling mediates resistance to mycobacteria by inhibiting bacterial growth and macrophage death.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables cytokine activity	IBA Inferred from Biological aspect of Ancestor more info
enables cytokine activity	IEA Inferred from Electronic Annotation more info
enables tumor necrosis factor receptor binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell surface receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within defense response to bacterium	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within immune response	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within immune response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within liver development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of extrinsic apoptotic signaling pathway	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: tumor necrosis factor b (TNF superfamily, member 2)

Names: TNF alpha; TNF-alpha 2; TNF2; lta; tumor necrosis factor (TNF superfamily, member 2); tumor necrosis factor alpha

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_001024447.1 → NP_001019618.1 tumor necrosis factor b (TNF superfamily, member 2)

See identical proteins and their annotated locations for NP_001019618.1

Status: PROVISIONAL

Source sequence(s)

AB183467

UniProtKB/TrEMBL

A8E7P9, Q4W898

Related

ENSDARP00000010728.7, ENSDART00000017569.8

Conserved Domains (1) summary

cd00184
Location:100 → 240

TNF; Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal ...