hoxa9b homeobox A9b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hoxa9bprovided by ZNC
Official Full Name: homeobox A9bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-000823-2
See related: Ensembl:ENSDARG00000056819 AllianceGenome:ZFIN:ZDB-GENE-000823-2
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: Hoxa-9; zgc:110504
Summary: Predicted to enable DNA-binding transcription factor activity and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in embryonic skeletal system morphogenesis; regionalization; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within DNA-templated transcription and regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; chondroblast; mesenchyme; pectoral fin bud; and pectoral fin field. Orthologous to human HOXA9 (homeobox A9). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 16

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	16	NC_007127.7 (20915319..20917582)
105	previous assembly	GRCz10 (GCF_000002035.5)	16	NC_007127.6 (21109098..21111765)

Chromosome 16 - NC_007127.7 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
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?

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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	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
acts_upstream_of_or_within DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in anterior/posterior pattern specification	IBA Inferred from Biological aspect of Ancestor more info
involved_in embryonic skeletal system morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in proximal/distal pattern formation	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 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-A9b

Names: homeo box A9b

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_131533.1 → NP_571608.1 homeobox protein Hox-A9b

See identical proteins and their annotated locations for NP_571608.1

Status: PROVISIONAL

Source sequence(s)

AF071249

UniProtKB/Swiss-Prot

Q4PRA6, Q503J9, Q8AWY3, Q9YGT5

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam04617
Location:1 → 174

Hox9_act; Hox9 activation region

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007127.7 Reference GRCz11 Primary Assembly

Range

20915319..20917582

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005157968.5 → XP_005158025.1 homeobox protein Hox-A9b isoform X1

UniProtKB/Swiss-Prot

Q4PRA6, Q503J9, Q8AWY3, Q9YGT5

UniProtKB/TrEMBL

A0A8M2B4A3, F1QQN5

Related

ENSDARP00000073839.4, ENSDART00000079383.5

Conserved Domains (2) summary

pfam00046
Location:190 → 243

Homeobox; Homeobox domain

pfam04617
Location:1 → 174

Hox9_act; Hox9 activation region