hif1ab hypoxia inducible factor 1 subunit alpha b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: hif1abprovided by ZNC
Official Full Name: hypoxia inducible factor 1 subunit alpha bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-706
See related: Ensembl:ENSDARG00000034293 AllianceGenome:ZFIN:ZDB-GENE-040426-706
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: hif1a; zgc:55405; wu:fb63a10
Summary: Enables chromatin binding activity and transcription cis-regulatory region binding activity. Acts upstream of or within with a positive effect on neural crest cell migration. Acts upstream of or within several processes, including hematopoietic stem cell differentiation; macrophage migration; and motor neuron axon guidance. Predicted to be located in cytoplasm and nucleus. Is expressed in several structures, including cardiovascular system; digestive system; musculature system; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in carcinoma (multiple); diabetic retinopathy; myocardial infarction; prostate cancer; and type 2 diabetes mellitus. Orthologous to human HIF1A (hypoxia inducible factor 1 subunit alpha). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 20

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	20	NC_007131.7 (20326611..20355577, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	20	NC_007131.6 (20426938..20455904, complement)

Chromosome 20 - NC_007131.7 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?

Specific cyprinid HIF isoforms contribute to cellular mitochondrial regulation.
Title: Specific cyprinid HIF isoforms contribute to cellular mitochondrial regulation.
this study shows that Hif-1alpha-induced expression of Il-1beta protects against Mycobacterial infection in Zebrafish
Title: Hif-1α-Induced Expression of Il-1β Protects against Mycobacterial Infection in Zebrafish.
Hif-1alpha has a role in regulating macrophage-endothelial interactions during blood vessel development in zebrafish
Title: Hif-1α regulates macrophage-endothelial interactions during blood vessel development in zebrafish.
that Tet1 modulates HIF-2alpha and HIF-1alpha through different mechanisms.
Title: Tet1 facilitates hypoxia tolerance by stabilizing the HIF-α proteins independent of its methylcytosine dioxygenase activity.
the current study revealed that hypoxic exposure inhibited Ca(2+) uptake in developing zebrafish, probably owing to HIF-1alphab-mediated suppression of ecac expression.
Title: Inhibition of calcium uptake during hypoxia in developing zebrafish is mediated by hypoxia-inducible factor.
The HIF1alpha-E2F7 complex regulates axon guidance of spinal motor neurons through NRP1
Title: Genome-wide analysis reveals NRP1 as a direct HIF1α-E2F7 target in the regulation of motorneuron guidance in vivo.
Hypoxic exposure (oxygen partial pressure = 5 kPa) in turn caused a significant increase in the level of Hif-1alpha protein even at 1 days post fertilization and in later stages, while neither Hif-2alpha nor Hif-3alpha protein level were affected.
Title: Developmental Expression and Hypoxic Induction of Hypoxia Inducible Transcription Factors in the Zebrafish.
Our findings suggest that a lack of pink1 in zebrafish alters many vital and critical pathways in addition to the HIF signaling pathway.
Title: A zebrafish model of PINK1 deficiency reveals key pathway dysfunction including HIF signaling.
Hif-1alpha is a key regulator that integrates epithelial to mesenchymal transition and chemotaxis during migration of neural crest cells.
Title: The hypoxia factor Hif-1α controls neural crest chemotaxis and epithelial to mesenchymal transition.
Our data demonstrate that Hif-1alpha regulates neutrophil function in complex ways during inflammation resolution in vivo.
Title: Activation of hypoxia-inducible factor-1α (Hif-1α) delays inflammation resolution by reducing neutrophil apoptosis and reverse migration in a zebrafish inflammation model.

Submit: New GeneRIF Correction See all GeneRIFs (11)

General gene information

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Markers

fa92c10.x1 (e-PCR)
- UniSTS:202565

fi29d12.x1 (e-PCR)
- UniSTS:197206

fl24a10.x1 (e-PCR)
- UniSTS:202080

fb63a10.x1 (e-PCR)
- UniSTS:203404

Gene Ontology Provided by ZFIN

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

Process	Evidence Code	Pubs
acts_upstream_of_or_within Notch signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within Notch signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to hypoxia	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within hematopoietic stem cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hematopoietic stem cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within macrophage migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within motor neuron axon guidance	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within motor neuron axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within_positive_effect neural crest cell migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neural crest cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within_positive_effect neural crest cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of angiogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within response to glucose	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to hypoxia	IMP Inferred from Mutant Phenotype more info	PubMed

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

General protein information

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Preferred Names: hypoxia inducible factor 1 subunit alpha b

Names: HIF1B; hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) b

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_001310042.1 → NP_001296971.1 hypoxia inducible factor 1 subunit alpha b

See identical proteins and their annotated locations for NP_001296971.1

Status: VALIDATED

Source sequence(s)

BX255914, EH457403, EH458841, EH483130

UniProtKB/TrEMBL

A0A8M1P1R6, Q6EHI4

Related

ENSDARP00000004329.6, ENSDART00000018500.9

Conserved Domains (6) summary

smart00091
Location:94 → 149

PAS; PAS domain

cd00083
Location:14 → 74

HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...

cd00130
Location:239 → 338

PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...

pfam08447
Location:254 → 339

PAS_3; PAS fold

pfam08778
Location:740 → 776

HIF-1a_CTAD; HIF-1 alpha C terminal transactivation domain

pfam11413
Location:543 → 574

HIF-1; Hypoxia-inducible factor-1