npas4a neuronal PAS domain protein 4a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: npas4aprovided by ZNC
Official Full Name: neuronal PAS domain protein 4aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-060616-396
See related: Ensembl:ENSDARG00000055752 AllianceGenome:ZFIN:ZDB-GENE-060616-396
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: npas4; wu:fj52d04; zgc:136764
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 blood vessel development and forebrain development. Predicted to be located in nucleus. Is expressed in forebrain. Orthologous to human NPAS4 (neuronal PAS domain protein 4). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (30636955..30642819, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (30296641..30302505, 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?

Npas4a expression in the teleost forebrain is associated with stress coping style differences in fear learning.
Title: Npas4a expression in the teleost forebrain is associated with stress coping style differences in fear learning.
NPAS4 is expressed in endothelial cells, regulates VE-cadherin expression and regulates sprouting angiogenesis.
Title: The neuronal transcription factor NPAS4 is a strong inducer of sprouting angiogenesis and tip cell formation.

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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, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein dimerization activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within blood vessel development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in excitatory postsynaptic potential	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within forebrain development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in inhibitory postsynaptic potential	ISS Inferred from Sequence or Structural Similarity more info
involved_in inhibitory synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in learning	ISS Inferred from Sequence or Structural Similarity more info
involved_in long-term memory	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of synaptic plasticity	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of synaptic transmission, GABAergic	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in short-term memory	ISS Inferred from Sequence or Structural Similarity more info
involved_in social behavior	ISS Inferred from Sequence or Structural Similarity more info

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

General protein information

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Preferred Names: neuronal PAS domain-containing protein 4A

Names: HLH-PAS transcription factor NXF; bHLH-PAS type transcription factor NXF; neuronal PAS domain protein 4; neuronal PAS domain-containing protein 4; neuronal PAS4; neuronal PAS4A

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_001045321.1 → NP_001038786.1 neuronal PAS domain-containing protein 4A

See identical proteins and their annotated locations for NP_001038786.1

Status: PROVISIONAL

Source sequence(s)

BC117648

UniProtKB/Swiss-Prot

Q1ECW2, Q5I7E4

Related

ENSDARP00000072616.4, ENSDART00000078154.5

Conserved Domains (3) summary

smart00091
Location:77 → 139

PAS; PAS domain

cd00130
Location:238 → 321

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 ...

pfam14598
Location:234 → 336

PAS_11; PAS domain