nfkb1 nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: nfkb1provided by ZNC
Official Full Name: nuclear factor of kappa light polypeptide gene enhancer in B-cells 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-121204-3
See related: Ensembl:ENSDARG00000105261 AllianceGenome:ZFIN:ZDB-GENE-121204-3
Gene type: protein coding
RefSeq status: MODEL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: p50
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and nucleus. Is expressed in retina. Human ortholog(s) of this gene implicated in several diseases, including carcinoma (multiple); common variable immunodeficiency; melanoma; prostate cancer; and tropical spastic paraparesis. Orthologous to several human genes including BICDL1 (BICD family like cargo adaptor 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (49811926..49859886, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (50610043..50657835, complement)

Chromosome 14 - NC_007125.7 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?

Study indicate an essential role of NF-kappaB in gonadal differentiation.
Title: Activation of NF-κB protein prevents the transition from juvenile ovary to testis and promotes ovarian development in zebrafish.

Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Z9420 (e-PCR)
- UniSTS:34613

Homology

NCBI Orthologs

Orthologs from OrthoDB

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

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in epithelium development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: BICD family-like cargo adapter 1

Names: NF-kB1 precursor protein

NCBI Reference Sequences (RefSeq)

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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_007125.7 Reference GRCz11 Primary Assembly

Range

49811926..49859886 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021481269.1 → XP_021336944.1 BICD family-like cargo adapter 1 isoform X2

UniProtKB/TrEMBL

A0A0R4IN79, A0A8M2BHN4, A0A8M9QGX8

Conserved Domains (2) summary

cd01177
Location:260 → 359

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 ...

cl08275
Location:52 → 253

RHD-n; N-terminal sub-domain of the Rel homology domain (RHD)
XM_021481270.1 → XP_021336945.1 BICD family-like cargo adapter 1 isoform X3

UniProtKB/TrEMBL

A0A0R4IN79, A0A8M2BHN4, A0A8M9QPM1

Conserved Domains (2) summary

cd01177
Location:255 → 354

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 ...

cl08275
Location:47 → 248

RHD-n; N-terminal sub-domain of the Rel homology domain (RHD)
XM_005170256.4 → XP_005170313.1 BICD family-like cargo adapter 1 isoform X1

UniProtKB/TrEMBL

A0A0R4IN79

Related

ENSDARP00000135800.1, ENSDART00000164967.2

Conserved Domains (2) summary

cd01177
Location:261 → 360

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 ...

cl08275
Location:53 → 254

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

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001353873.1: Suppressed sequence

Description

NM_001353873.1: This RefSeq was removed because currently there is not sufficient data to support this transcript.