xbp1 X-box binding protein 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: xbp1provided by ZNC
Official Full Name: X-box binding protein 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-011210-2
See related: Ensembl:ENSDARG00000035622 AllianceGenome:ZFIN:ZDB-GENE-011210-2
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: cb918; treb5; trebf; xbp1a; xbp1b; id:ibd1195; wu:fb02h05; wu:fb63f10
Summary: Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Acts upstream of or within several processes, including hatching; hatching gland development; and liver development. Predicted to be active in nucleus. Is expressed in several structures, including axial mesoderm; digestive system; ectoderm; eye; and germ ring. Orthologous to human XBP1 (X-box binding protein 1). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 5

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (15944411..15948855, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (15444194..15448638, complement)

Chromosome 5 - NC_007116.7 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?

SRP54 mutations induce congenital neutropenia via dominant-negative effects on XBP1 splicing.
Title: SRP54 mutations induce congenital neutropenia via dominant-negative effects on XBP1 splicing.
Expression of xbp1 is significantly upregulated in the liver of Cdipt-deficient zebrafish due to persistent endoplasmic reticulum stress. Cdipt-deficient zebrafish exhibits hepatic lipid accumulation.
Title: Lack of de novo phosphatidylinositol synthesis leads to endoplasmic reticulum stress and hepatic steatosis in cdipt-deficient zebrafish.
zebrafish XBP-1 spliced form not only activates genes responsible for protein folding, transporting, glycosylation and Endoplasmic Reticulum associated degradation but also activates anti-apoptosis signal via IGF1/Akt pathway in unfolded protein
Title: XBP-1, a key regulator of unfolded protein response, activates transcription of IGF1 and Akt phosphorylation in zebrafish embryonic cell line.

Submit: New GeneRIF Correction

General gene information

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Markers

fe02a08.y1 (e-PCR)
- UniSTS:195928

fb02h05.x1 (e-PCR)
- UniSTS:202684

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 transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within hatching	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hatching gland development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within liver development	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed

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

General protein information

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Preferred Names: X-box-binding protein 1

Names: X-box binding protein 1B

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_131874.1 → NP_571949.1 X-box-binding protein 1

See identical proteins and their annotated locations for NP_571949.1

Status: PROVISIONAL

Source sequence(s)

AY029577

UniProtKB/TrEMBL

Q6NYR2, Q90X27

Related

ENSDARP00000106586.2, ENSDART00000124467.4

Conserved Domains (1) summary

cd14691
Location:69 → 126

bZIP_XBP1; Basic leucine zipper (bZIP) domain of X-box binding protein 1 (XBP1) and similar proteins: a DNA-binding and dimerization domain