Cry2 cryptochrome circadian regulator 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cry2provided by RGD
Official Full Name: cryptochrome circadian regulator 2provided by RGD
Primary source: RGD:620935
See related: EnsemblRapid:ENSRNOG00000007478 AllianceGenome:RGD:620935
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: This gene encodes a flavin adenine dinucleotide-binding protein that is a key component of the circadian core oscillator complex, which regulates the circadian clock. This gene is upregulated by Clock/Arntl heterodimers but then represses this upregulation in a feedback loop using Per/Cry heterodimers to interact with Clock/Arntl. Polymorphisms in this gene have been associated with altered sleep patterns. The encoded protein is widely conserved across plants and animals. [provided by RefSeq, Feb 2014]
Expression: Biased expression in Brain (RPKM 97.3), Adrenal (RPKM 92.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q24

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (98830479..98860437, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (78374995..78405001, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (81314151..81344143, complement)

Chromosome 3 - NC_086021.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The circadian gene Cryptochrome 2 influences stress-induced brain activity and depressive-like behavior in mice.
Title: The circadian gene Cryptochrome 2 influences stress-induced brain activity and depressive-like behavior in mice.
Data show that there is a 24-h rhythm in the expression of Per2 and Cry2 in males and females.
Title: Gender associated circadian oscillations of the clock genes in rat choroid plexus.
We investigated the effect of aging on daily rhythms of various clock genes such as rPer1, rPer2, rCry1, rCry2 and rBmal1 in the SCN of male Wistar rats.
Title: Differential role of melatonin in restoration of age-induced alterations in daily rhythms of expression of various clock genes in suprachiasmatic nucleus of male Wistar rats.
N-nitroso-N-methylurea disrupted the expression of Cry2 in mammary glands of Fischer 344 rats
Title: Methylselenocysteine resets the rhythmic expression of circadian and growth-regulatory genes disrupted by nitrosomethylurea in vivo.
cry2 may function in circadian photoreception in the rat brain
Title: Cloning and expression of cryptochrome2 cDNA in the rat.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH141789 (e-PCR)
- UniSTS:223782

AU048745 (e-PCR)
- UniSTS:145195

Cry2 (e-PCR), detects polymorphism
- UniSTS:532165

Cry2 (e-PCR), detects polymorphism
- UniSTS:506822

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
NOT enables DNA (6-4) photolyase activity	ISO Inferred from Sequence Orthology more info
enables DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables FAD binding	IBA Inferred from Biological aspect of Ancestor more info
enables FAD binding	IEA Inferred from Electronic Annotation more info
enables FAD binding	ISO Inferred from Sequence Orthology more info
enables FAD binding	ISS Inferred from Sequence or Structural Similarity more info
enables damaged DNA binding	IEA Inferred from Electronic Annotation more info
enables damaged DNA binding	ISO Inferred from Sequence Orthology more info
NOT enables deoxyribodipyrimidine photo-lyase activity	ISO Inferred from Sequence Orthology more info
enables kinase binding	ISO Inferred from Sequence Orthology more info
enables lyase activity	IEA Inferred from Electronic Annotation more info
enables nuclear receptor binding	IEA Inferred from Electronic Annotation more info
enables nuclear receptor binding	ISO Inferred from Sequence Orthology more info
enables phosphatase binding	IEA Inferred from Electronic Annotation more info
enables phosphatase binding	ISO Inferred from Sequence Orthology more info
enables photoreceptor activity	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	IEA Inferred from Electronic Annotation more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info
enables protein phosphatase inhibitor activity	IEA Inferred from Electronic Annotation more info
enables protein phosphatase inhibitor activity	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	IEA Inferred from Electronic Annotation more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	IEA Inferred from Electronic Annotation more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in circadian regulation of gene expression	IBA Inferred from Biological aspect of Ancestor more info
involved_in circadian regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in circadian regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in circadian regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
involved_in circadian rhythm	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in circadian rhythm	ISS Inferred from Sequence or Structural Similarity more info
involved_in entrainment of circadian clock by photoperiod	IBA Inferred from Biological aspect of Ancestor more info
involved_in entrainment of circadian clock by photoperiod	IEA Inferred from Electronic Annotation more info
involved_in entrainment of circadian clock by photoperiod	ISO Inferred from Sequence Orthology more info
involved_in entrainment of circadian clock by photoperiod	ISS Inferred from Sequence or Structural Similarity more info
involved_in glucose homeostasis	IEA Inferred from Electronic Annotation more info
involved_in glucose homeostasis	ISO Inferred from Sequence Orthology more info
involved_in glucose homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in lipid storage	IEA Inferred from Electronic Annotation more info
involved_in lipid storage	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of circadian rhythm	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of circadian rhythm	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of glucocorticoid receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of glucocorticoid receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of glucocorticoid receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of glucocorticoid secretion	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of glucocorticoid secretion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
NOT involved_in photoreactive repair	ISO Inferred from Sequence Orthology more info
involved_in protein import into nucleus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein import into nucleus	ISO Inferred from Sequence Orthology more info
involved_in regulation of circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in regulation of circadian rhythm	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of sodium-dependent phosphate transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of sodium-dependent phosphate transport	ISO Inferred from Sequence Orthology more info
involved_in response to activity	IEA Inferred from Electronic Annotation more info
involved_in response to activity	ISO Inferred from Sequence Orthology more info
involved_in response to activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to insulin	IEA Inferred from Electronic Annotation more info
involved_in response to insulin	ISO Inferred from Sequence Orthology more info
involved_in response to light stimulus	ISO Inferred from Sequence Orthology more info
involved_in response to light stimulus	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
part_of Cry-Per complex	IEA Inferred from Electronic Annotation more info
part_of Cry-Per complex	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
located_in extracellular region	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	IEA Inferred from Electronic Annotation more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: cryptochrome-2

Names: cryptochrome 2 (photolyase-like); cryptochrome circadian clock 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_133405.2 → NP_596896.2 cryptochrome-2

See identical proteins and their annotated locations for NP_596896.2

Status: PROVISIONAL

Source sequence(s)

BC166416

UniProtKB/Swiss-Prot

Q923I8

UniProtKB/TrEMBL

A6HNH4, A6HNH5, B2GUU9

Related

ENSRNOP00000010142.2, ENSRNOT00000010142.6

Conserved Domains (3) summary

COG0415
Location:21 → 509

PhrB; Deoxyribodipyrimidine photolyase [Replication, recombination and repair]

pfam00875
Location:23 → 171

DNA_photolyase; DNA photolyase

pfam03441
Location:231 → 504

FAD_binding_7; FAD binding domain of DNA photolyase