cry1a cryptochrome circadian regulator 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: cry1aprovided by ZNC
Official Full Name: cryptochrome circadian regulator 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-010426-2
See related: Ensembl:ENSDARG00000045768 AllianceGenome:ZFIN:ZDB-GENE-010426-2
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: cry1aa; zgc:153885
Summary: Enables transcription corepressor activity. Acts upstream of or within several processes, including entrainment of circadian clock; negative regulation of transcription, DNA-templated; and response to hydrogen peroxide. Located in nucleus. Part of transcription regulator complex. Is expressed in brain; eye; integument; and kidney. Human ortholog(s) of this gene implicated in advanced sleep phase syndrome. Orthologous to human CRY1 (cryptochrome circadian regulator 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 4

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (12013042..12026537)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (12014193..12027688)

Chromosome 4 - NC_007115.7 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 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?

The Light-Inducible Genes Per2, Cry1a, and Cry2a Regulate Oxidative Status in Zebrafish.
Title: The Light-Inducible Genes Per2, Cry1a, and Cry2a Regulate Oxidative Status in Zebrafish.
regulate total physical activity, likely via regulating cellular energy metabolism.
Title: The clock components Period2, Cryptochrome1a, and Cryptochrome2a function in establishing light-dependent behavioral rhythms and/or total activity levels in zebrafish.
Data indicate that magnetic receptor magnetoreceptor (MagR) and cryptochrome cry2 exist as a single copy gene, whereas cry1 exists as multiple gene duplicates (cry1aa, cry1ab, cry1ba and cry1bb).
Title: Identification of zebrafish magnetoreceptor and cryptochrome homologs.
A single D-box serves as the principal light responsive element within the cry1a promoter.
Title: Regulation of per and cry genes reveals a central role for the D-box enhancer in light-dependent gene expression.
Circadian oscillation of zCry1a is CLOCK:BMAL-independent and further indicate that mechanisms involving non-canonical clock genes could contribute to the circadian expression of zCry1a gene in a cell autonomous manner.
Title: CLOCK:BMAL-independent circadian oscillation of zebrafish Cryptochrome1a gene.
Vertebrate CRY regions responsible for interaction with the CLOCK:BMAL1 heterodimer and its nuclear localization.
Title: Functional and structural analyses of cryptochrome. Vertebrate CRY regions responsible for interaction with the CLOCK:BMAL1 heterodimer and its nuclear localization.
Light signaling to the zebrafish circadian clock by cry1a. Cry1a acts as a potent repressor of clock function and mimics the effect of constant light to "stop" the cricadian oscillator.
Title: Light signaling to the zebrafish circadian clock by Cryptochrome 1a.
CRY1a regulates the sub-cellular distributions of zCLOCK and zBMAL proteins.
Title: New role of zCRY and zPER2 as regulators of sub-cellular distributions of zCLOCK and zBMAL proteins.
Light-dependent activation of Fos/AP-1 induces the expression of zCry1a, a clock gene of the feedback regulatory loop.
Title: Common pathways in circadian and cell cycle clocks: light-dependent activation of Fos/AP-1 in zebrafish controls CRY-1a and WEE-1.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables FAD binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables photoreceptor activity	IEA Inferred from Electronic Annotation more info
contributes_to protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables transcription coregulator activity	IDA Inferred from Direct Assay more info	PubMed
enables transcription corepressor activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in circadian regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within circadian rhythm	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within entrainment of circadian clock	IDA Inferred from Direct Assay more info	PubMed
involved_in entrainment of circadian clock by photoperiod	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within response to hydrogen peroxide	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to light stimulus	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within rhythmic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: cryptochrome circadian regulator 1a

Names: cryptochrome 1a; cryptochrome circadian clock 1a; cryptochrome circadian clock 1aa; cryptochrome circadian regulator 1aa

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_001077297.2 → NP_001070765.2 cryptochrome circadian regulator 1a

See identical proteins and their annotated locations for NP_001070765.2

Status: VALIDATED

Source sequence(s)

BC134838, EH433706

UniProtKB/TrEMBL

A4QN37, B3DJ45, H0WE34

Related

ENSDARP00000112452.2, ENSDART00000130692.4

Conserved Domains (3) summary

COG0415
Location:5 → 491

PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]

pfam00875
Location:5 → 167

DNA_photolyase; DNA photolyase

pfam03441
Location:213 → 486

FAD_binding_7; FAD binding domain of DNA photolyase