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    zgc:77752 zgc:77752 [ Danio rerio (zebrafish) ]

    Gene ID: 393862, updated on 9-Dec-2024

    Summary

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    Official Symbol
    zgc:77752provided by ZNC
    Official Full Name
    zgc:77752provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1867
    See related
    Ensembl:ENSDARG00000042387 AllianceGenome:ZFIN:ZDB-GENE-040426-1867
    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
    Summary
    Predicted to enable protein tyrosine phosphatase activity. Predicted to be involved in cilium assembly. Predicted to act upstream of or within protein dephosphorylation. Predicted to be active in cytoplasm. Is expressed in retina and retinal photoreceptor layer. Orthologous to human PTPDC1 (protein tyrosine phosphatase domain containing 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See zgc:77752 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (7594012..7609173)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (7635077..7650238)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene si:dkeyp-1h4.9 Neighboring gene si:dkey-238c7.13 Neighboring gene ciliary microtubule associated protein 1B Neighboring gene tripartite motif containing 35-30

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. 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
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Clone Names

    • MGC77752

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphoprotein phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein tyrosine phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein tyrosine phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cilium assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein LOC393862

    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)

    1. NM_001328437.1 → NP_001315366.1  uncharacterized protein LOC393862

      Status: VALIDATED

      Source sequence(s)
      CR318588
      UniProtKB/TrEMBL
      A0A8M1PAB8, Q1L9G1
      Related
      ENSDARP00000062149.6, ENSDART00000062150.7
      Conserved Domains (1) summary
      cl21483
      Location:159 → 200
      PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...

    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_007129.7 Reference GRCz11 Primary Assembly

      Range
      7594012..7609173
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395003.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      233833..248956
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395333.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      42202..57363
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_200888.1: Suppressed sequence

      Description
      NM_200888.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version

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