hoxb5a homeobox B5a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hoxb5aprovided by ZNC
Official Full Name: homeobox B5aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-70
See related: Ensembl:ENSDARG00000013057 AllianceGenome:ZFIN:ZDB-GENE-980526-70
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: ZF21; z-18; ZF-21; hoxb5; hox-B5; hox-2.1; wu:fc38c09
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. Acts upstream of or within brain development and cell fate specification. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; mesenchyme; mesoderm; neural tube; and somite. Orthologous to human HOXB5 (homeobox B5). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 3

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	3	NC_007114.7 (23707700..23710095)
105	previous assembly	GRCz10 (GCF_000002035.5)	3	NC_007114.6 (23577152..23579547)

Chromosome 3 - NC_007114.7 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?

Conserved non-coding elements (CNEs) near the zebrafish hoxb5 genes, were characterized.
Title: Functional resolution of duplicated hoxb5 genes in teleosts.

Submit: New GeneRIF Correction

General gene information

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Markers

hoxb5a (e-PCR), detects polymorphism
- UniSTS:238229

fc38c09.x1 (e-PCR)
- UniSTS:193727

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	IEA Inferred from Electronic Annotation more info
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 anterior/posterior pattern specification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within brain development	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within cell fate specification	IMP Inferred from Mutant Phenotype more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

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: homeobox protein Hox-B5a

Names: homeo box B5a; homeobox gene B-5; homeobox protein Zf-21

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.