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

    Gene ID: 18628, updated on 9-Dec-2024

    Summary

    Official Symbol
    Per3provided by MGI
    Official Full Name
    period circadian clock 3provided by MGI
    Primary source
    MGI:MGI:1277134
    See related
    Ensembl:ENSMUSG00000028957 AllianceGenome:MGI:1277134
    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
    NEW
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    Try the new Transcript table

    Genomic context

    See Per3 in Genome Data Viewer
    Location:
    4 E2; 4 81.53 cM
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (151081475..151129167, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (150997018..151044707, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6289 Neighboring gene predicted gene, 23405 Neighboring gene predicted gene, 30120 Neighboring gene STARR-positive B cell enhancer ABC_E1294 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 Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (7)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables kinase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription cis-regulatory region binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables transcription corepressor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    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

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

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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
      UniProtKB/TrEMBL
      B9EIT7
      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
      A2A894, O70361
      UniProtKB/TrEMBL
      B9EIT7
      Related
      ENSMUSP00000099493.5, ENSMUST00000103204.11
      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: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      151081475..151129167 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036163827.1XP_036019720.1  period circadian protein homolog 3 isoform X7

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:8641040
      Period_C; Period protein 2/3C-terminal region
    2. XM_017320034.3XP_017175523.2  period circadian protein homolog 3 isoform X4

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:9051081
      Period_C; Period protein 2/3C-terminal region
    3. XM_017320032.3XP_017175521.1  period circadian protein homolog 3 isoform X2

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:9061082
      Period_C; Period protein 2/3C-terminal region
    4. XM_017320033.3XP_017175522.1  period circadian protein homolog 3 isoform X3

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:9061082
      Period_C; Period protein 2/3C-terminal region
    5. XM_017320031.3XP_017175520.1  period circadian protein homolog 3 isoform X1

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:9071083
      Period_C; Period protein 2/3C-terminal region
    6. XM_030253311.2XP_030109171.1  period circadian protein homolog 3 isoform X8

      Conserved Domains (1) summary
      pfam12114
      Location:591767
      Period_C; Period protein 2/3C-terminal region
    7. XM_017320036.3XP_017175525.1  period circadian protein homolog 3 isoform X9

      Conserved Domains (1) summary
      pfam12114
      Location:588764
      Period_C; Period protein 2/3C-terminal region
    8. XM_036163826.1XP_036019719.1  period circadian protein homolog 3 isoform X6

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:9051109
      Period_C; Period protein 2/3C-terminal region
    9. XM_011250203.4XP_011248505.1  period circadian protein homolog 3 isoform X5

      UniProtKB/TrEMBL
      B9EIT7
      Conserved Domains (2) summary
      pfam08447
      Location:280368
      PAS_3; PAS fold
      pfam12114
      Location:9061110
      Period_C; Period protein 2/3C-terminal region

    RNA

    1. XR_004941847.1 RNA Sequence

    2. XR_004941849.1 RNA Sequence

    3. XR_004941848.1 RNA Sequence

    4. XR_004941846.1 RNA Sequence

    5. XR_004941845.1 RNA Sequence

    6. XR_004941844.1 RNA Sequence

    7. XR_003954892.2 RNA Sequence

    8. XR_004941850.1 RNA Sequence

    9. XR_001784108.3 RNA Sequence

    10. XR_004941843.1 RNA Sequence