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Per3 period circadian clock 3 [ Mus musculus (house mouse) ]

Gene ID: 18628, updated on 9-Sep-2018

Summary

Official Symbol
Per3provided by MGI
Official Full Name
period circadian clock 3provided by MGI
Primary source
MGI:MGI:1277134
See related
Ensembl:ENSMUSG00000028957 Vega:OTTMUSG00000010238
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
mPer3; 2810049O06Rik
Summary
This gene is a member of the Period family of genes and is expressed in a circadian pattern in the suprachiasmatic nucleus, the primary circadian pacemaker in the mammalian brain. Genes in this family encode components of the circadian rhythms of locomotor activity, metabolism, and behavior. 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 linked to sleep disorders. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Feb 2014]
Expression
Broad expression in bladder adult (RPKM 14.0), cortex adult (RPKM 6.1) and 22 other tissues See more
Orthologs

Genomic context

See Per3 in Genome Data Viewer
Location:
4; 4 E2
Exon count:
23
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 4 NC_000070.6 (150997018..151044723, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (150377764..150418731, complement)

Chromosome 4 - NC_000070.6Genomic Context describing neighboring genes Neighboring gene tumor necrosis factor receptor superfamily, member 9 Neighboring gene predicted gene, 30120 Neighboring gene urotensin 2 Neighboring gene predicted gene, 38529 Neighboring gene vesicle-associated membrane protein 3 Neighboring gene calmodulin binding transcription activator 1 Neighboring gene predicted gene 13090

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

  • Circadian entrainment, organism-specific biosystem (from KEGG)
    Circadian entrainment, organism-specific biosystemCircadian entrainment is a fundamental property by which the period of the internal biological clock is entrained by recurring exogenous signals, such that the organism's endocrine and behavioral rhy...
  • Circadian entrainment, conserved biosystem (from KEGG)
    Circadian entrainment, conserved biosystemCircadian entrainment is a fundamental property by which the period of the internal biological clock is entrained by recurring exogenous signals, such that the organism's endocrine and behavioral rhy...
  • Circadian rhythm, organism-specific biosystem (from KEGG)
    Circadian rhythm, organism-specific biosystemCircadian rhythm is an internal biological clock, which enables to sustain an approximately 24-hour rhythm in the absence of environmental cues. In mammals, the circadian clock mechanism consists of ...
  • Circadian rhythm, conserved biosystem (from KEGG)
    Circadian rhythm, conserved biosystemCircadian rhythm is an internal biological clock, which enables to sustain an approximately 24-hour rhythm in the absence of environmental cues. In mammals, the circadian clock mechanism consists of ...
  • Herpes simplex infection, organism-specific biosystem (from KEGG)
    Herpes simplex infection, organism-specific biosystemHerpes simplex virus (HSV) infections are very common worldwide, with the prevalence of HSV-1 reaching up to 80%-90%. Primary infection with HSV takes place in the mucosa, followed by the establishme...
  • Herpes simplex infection, conserved biosystem (from KEGG)
    Herpes simplex infection, conserved biosystemHerpes simplex virus (HSV) infections are very common worldwide, with the prevalence of HSV-1 reaching up to 80%-90%. Primary infection with HSV takes place in the mucosa, followed by the establishme...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription corepressor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription factor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
circadian regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
circadian rhythm IDA
Inferred from Direct Assay
more info
PubMed 
entrainment of circadian clock by photoperiod IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
protein stabilization ISO
Inferred from Sequence Orthology
more info
 
regulation of circadian sleep/wake cycle, sleep IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of circadian sleep/wake cycle, sleep ISO
Inferred from Sequence Orthology
more info
 
regulation of transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
response to light stimulus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
rhythmic process IEA
Inferred from Electronic Annotation
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
period circadian protein homolog 3
Names
circadian clock protein PERIOD 3
period homolog 3

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001289877.1NP_001276806.1  period circadian protein homolog 3 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AL607143
    Conserved Domains (3) summary
    cd00130
    Location:280372
    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:280368
    PAS_3; PAS fold
    pfam12114
    Location:9081111
    Period_C; Period protein 2/3C-terminal region
  2. NM_001289878.1NP_001276807.1  period circadian protein homolog 3 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains an alternate exon and uses a downstream start codon compared to variant 1. The resulting isoform (3) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AL607143
    Conserved Domains (1) summary
    pfam12114
    Location:701797
    Period_C; Period protein 2/3C-terminal region
  3. NM_011067.3NP_035197.2  period circadian protein homolog 3 isoform 2

    See identical proteins and their annotated locations for NP_035197.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.
    Source sequence(s)
    AL607143
    Consensus CDS
    CCDS18978.1
    UniProtKB/Swiss-Prot
    O70361
    Related
    ENSMUSP00000099493.4, OTTMUSP00000010897, ENSMUST00000103204.10, OTTMUST00000023794
    Conserved Domains (3) summary
    cd00130
    Location:280372
    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:280368
    PAS_3; PAS fold
    pfam12114
    Location:9071110
    Period_C; Period protein 2/3C-terminal region

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000070.6 Reference GRCm38.p4 C57BL/6J

    Range
    150997018..151044723 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017320033.1XP_017175522.1  period circadian protein homolog 3 isoform X3

  2. XM_017320031.1XP_017175520.1  period circadian protein homolog 3 isoform X1

  3. XM_017320032.1XP_017175521.1  period circadian protein homolog 3 isoform X2

  4. XM_017320035.1XP_017175524.1  period circadian protein homolog 3 isoform X6

  5. XM_017320036.1XP_017175525.1  period circadian protein homolog 3 isoform X7

  6. XM_017320034.1XP_017175523.1  period circadian protein homolog 3 isoform X5

  7. XM_011250203.2XP_011248505.1  period circadian protein homolog 3 isoform X4

    Conserved Domains (3) summary
    cd00130
    Location:280372
    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:280368
    PAS_3; PAS fold
    pfam12114
    Location:9071110
    Period_C; Period protein 2/3C-terminal region

RNA

  1. XR_001784108.1 RNA Sequence

Reference GRCm38.p4 NOD/MrkTac

Genomic

  1. NT_187025.1 Reference GRCm38.p4 NOD/MrkTac

    Range
    1308346..1349365 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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