bhlhe40 basic helix-loop-helix family, member e40 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: bhlhe40provided by ZNC
Official Full Name: basic helix-loop-helix family, member e40provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-3133
See related: Ensembl:ENSDARG00000004060 AllianceGenome:ZFIN:ZDB-GENE-030131-3133
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: DEC1; bhlhb2; zgc:76913; wu:fc28a06; wu:fm54h07
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 circadian regulation of gene expression; locomotor rhythm; and negative regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in several structures, including cardiovascular system; digestive system; immature eye; nervous system; and pleuroperitoneal region. Orthologous to human BHLHE40 (basic helix-loop-helix family member e40). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 11

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	11	NC_007122.7 (35759652..35763257, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	11	NC_007122.6 (35497669..35501274, complement)

Chromosome 11 - NC_007122.7 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?

These results indicate that zDec1 and zDec2 are involved in the circadian clock mechanism in photosensitive zebrafish peripheral cells by suppressing CLOCK/BMAL-induced gene expression.
Title: Molecular analysis of Dec1 and Dec2 in the peripheral circadian clock of zebrafish photosensitive cells.
Expression of DEC1 is evolutionally conserved in zebrafish.
Title: Cloning and developmental expression of the DEC1 ortholog gene in zebrafish.

Submit: New GeneRIF Correction

General gene information

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Markers

fj53f02.y1 (e-PCR)
- UniSTS:199534

fc28a06.x1 (e-PCR)
- UniSTS:187891

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 RNA polymerase II cis-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
involved_in anterior/posterior pattern specification	IBA Inferred from Biological aspect of Ancestor more info
involved_in circadian regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within circadian regulation of gene expression	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within locomotor rhythm	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay 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
involved_in regulation of neurogenesis	IBA Inferred from Biological aspect of Ancestor 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: class E basic helix-loop-helix protein 40

Names: bHLH protein DEC1; basic helix-loop-helix domain containing, class B, 2

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_212679.2 → NP_997844.2 class E basic helix-loop-helix protein 40

See identical proteins and their annotated locations for NP_997844.2

Status: PROVISIONAL

Source sequence(s)

AY652763

UniProtKB/TrEMBL

Q0D311

Related

ENSDARP00000023917.4, ENSDART00000026017.6

Conserved Domains (2) summary

cd00083
Location:51 → 109

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, ...

pfam07527
Location:139 → 177

Hairy_orange; Hairy Orange