U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    cpdp CPD photolyase [ Danio rerio (zebrafish) ]

    Gene ID: 394039, updated on 14-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    cpdpprovided by ZNC
    Official Full Name
    CPD photolyaseprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1644
    See related
    Ensembl:ENSDARG00000099519 AllianceGenome:ZFIN:ZDB-GENE-040426-1644
    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
    phr; zgc:66475
    Summary
    Predicted to enable deoxyribodipyrimidine photo-lyase activity. Predicted to be involved in photoreactive repair. Predicted to act upstream of or within DNA repair. [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See cpdp in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (13907414..13940919)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (12547124..12579895)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene zinc finger and BTB domain containing 41 Neighboring gene uncharacterized LOC101884121 Neighboring gene uncharacterized LOC137487711 Neighboring gene uncharacterized LOC103909867 Neighboring gene uncharacterized LOC110438158

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Regulation of ddb2 expression in blind cavefish and zebrafish reveals plasticity in the control of sunlight-induced DNA damage repair. Zhao H, et al. PLoS Genet, 2021 Feb. PMID 33544716, Free PMC Article
    2. Modulation of DNA Repair Systems in Blind Cavefish during Evolution in Constant Darkness. Zhao H, et al. Curr Biol, 2018 Oct 22. PMID 30318355
    3. Thyrotroph embryonic factor regulates light-induced transcription of repair genes in zebrafish embryonic cells. Gavriouchkina D, et al. PLoS One, 2010 Sep 7. PMID 20830285, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC66475

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables deoxyribodipyrimidine photo-lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    CPD photolyase
    Names
    DNA photolyase
    cpd-phr
    NP_957358.1
    XP_005168471.1
    XP_021335103.1
    XP_021335104.1
    XP_021335110.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_201064.2 → NP_957358.1  CPD photolyase

      See identical proteins and their annotated locations for NP_957358.1

      Status: VALIDATED

      Source sequence(s)
      CU855922
      UniProtKB/TrEMBL
      A0A8M9QCN4, Q7SYI9
      Related
      ENSDARP00000144753.1, ENSDART00000190691.1
      Conserved Domains (1) summary
      TIGR00591
      Location:50 → 501
      phr2; photolyase PhrII

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007113.7 Reference GRCz11 Primary Assembly

      Range
      13907414..13940919
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021479428.2 → XP_021335103.1  CPD photolyase isoform X2

      UniProtKB/TrEMBL
      A0A8M9QCN4, Q7SYI9
      Conserved Domains (1) summary
      TIGR00591
      Location:50 → 501
      phr2; photolyase PhrII

    2. XM_021479429.2 → XP_021335104.1  CPD photolyase isoform X2

      UniProtKB/TrEMBL
      A0A8M9QCN4, Q7SYI9
      Conserved Domains (1) summary
      TIGR00591
      Location:50 → 501
      phr2; photolyase PhrII

    3. XM_005168414.5 → XP_005168471.1  CPD photolyase isoform X1

      UniProtKB/TrEMBL
      A0A8M2BFQ9
      Conserved Domains (2) summary
      TIGR00591
      Location:68 → 519
      phr2; photolyase PhrII
      pfam00875
      Location:91 → 251
      DNA_photolyase; DNA photolyase

    4. XM_021479435.2 → XP_021335110.1  CPD photolyase isoform X3

      UniProtKB/TrEMBL
      A0A8M9QL92
      Conserved Domains (1) summary
      TIGR00591
      Location:68 → 422
      phr2; photolyase PhrII
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools