rela v-rel avian reticuloendotheliosis viral oncogene homolog A [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: relaprovided by ZNC
Official Full Name: v-rel avian reticuloendotheliosis viral oncogene homolog Aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040825-4
See related: Ensembl:ENSDARG00000098696 AllianceGenome:ZFIN:ZDB-GENE-040825-4
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: p65; nfkb3
Summary: Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Acts upstream of or within several processes, including defense response to virus; positive regulation of transcription, DNA-templated; and regulation of apoptotic process. Located in nucleus. Is expressed in intestine; kidney; liver; male organism; and posterior intestine. Human ortholog(s) of this gene implicated in ductal carcinoma in situ; lung non-small cell carcinoma; lymphoma; and renal cell carcinoma. Orthologous to human RELA (RELA proto-oncogene, NF-kB subunit). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 7

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	7	NC_007118.7 (767279..804593, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	7	NC_007118.6 (630414..667803, complement)

Chromosome 7 - NC_007118.7 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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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?

Zebrafish NF-kappaB/p65 Is Required for Antiviral Responses.
Title: Zebrafish NF-κB/p65 Is Required for Antiviral Responses.
NF-kappaB and Snail1a coordinate the cell cycle with gastrulation.
Title: NF-kappaB and Snail1a coordinate the cell cycle with gastrulation.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within anterior/posterior axis specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to stress	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within defense response to virus	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in epithelium development	IEA Inferred from Electronic Annotation more info
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in innate immune response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within mesoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in non-canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in response to cytokine	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: transcription factor p65

Names: P65 transcription factor; v-rel reticuloendotheliosis viral oncogene homolog A

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_001001839.2 → NP_001001839.2 transcription factor p65

See identical proteins and their annotated locations for NP_001001839.2

Status: VALIDATED

Source sequence(s)

CAAK05051228, CAAK05051229, CU896668

UniProtKB/TrEMBL

A0A0R4IFL0, A0A8N7XJB9, B3DHW2, B3DHW3

Related

ENSDARP00000133181.3, ENSDART00000159359.3

Conserved Domains (2) summary

cd07885
Location:18 → 186

RHD-n_RelA; N-terminal sub-domain of the Rel homology domain (RHD) of RelA

cd01177
Location:193 → 289

IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007118.7 Reference GRCz11 Primary Assembly

Range

767279..804593 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005170796.4 → XP_005170853.1 transcription factor p65 isoform X1

UniProtKB/TrEMBL

A0A8M2BI19

Conserved Domains (2) summary

cd07885
Location:18 → 186

RHD-n_RelA; N-terminal sub-domain of the Rel homology domain (RHD) of RelA

cd01177
Location:193 → 289

IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...