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    ptpn23b protein tyrosine phosphatase, non-receptor type 23, b [ Danio rerio (zebrafish) ]

    Gene ID: 560417, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ptpn23bprovided by ZNC
    Official Full Name
    protein tyrosine phosphatase, non-receptor type 23, bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060503-179
    See related
    Ensembl:ENSDARG00000098689 AllianceGenome:ZFIN:ZDB-GENE-060503-179
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    ptp23b; si:dkeyp-114f9.2
    Summary
    Predicted to be involved in early endosome to late endosome transport; endocytic recycling; and protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway. Predicted to act upstream of or within multivesicular body sorting pathway. Predicted to be active in endosome. Orthologous to human PTPN23 (protein tyrosine phosphatase non-receptor type 23). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See ptpn23b in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (19241372..19271270)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (19668373..19698317)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene mitochondrial ribosomal protein L3 Neighboring gene uncharacterized LOC137488503 Neighboring gene chondroitin sulfate proteoglycan 5b Neighboring gene SWI/SNF related BAF chromatin remodeling complex subunit C1b

    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. Identification and expression of the family of classical protein-tyrosine phosphatases in zebrafish. van Eekelen M, et al. PLoS One, 2010 Sep 3. PMID 20838449, Free PMC Article
    2. Zebrafish as a model to study PTPs during development. Paardekooper Overman J, et al. Methods, 2014 Jan 15. PMID 23974070
    3. 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
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in early endosome to late endosome transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endocytic recycling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within multivesicular body sorting pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    tyrosine-protein phosphatase non-receptor type 23b
    Names
    His domain-containing protein tyrosine phosphatase b
    ptpn23

    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_001044928.1 → NP_001038393.1  tyrosine-protein phosphatase non-receptor type 23b

      Status: PROVISIONAL

      Source sequence(s)
      CR626877
      UniProtKB/TrEMBL
      A0A2R8QCR7, A0A8M1N9J8
      Related
      ENSDARP00000150796.1, ENSDART00000184392.1
      Conserved Domains (3) summary
      cd09234
      Location:374 → 708
      V_HD-PTP_like; Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains
      cd09239
      Location:2 → 369
      BRO1_HD-PTP_like; Protein-interacting, N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains
      pfam13949
      Location:426 → 711
      ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV

    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_007130.7 Reference GRCz11 Primary Assembly

      Range
      19241372..19271270
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005159517.5 → XP_005159574.1  tyrosine-protein phosphatase non-receptor type 23b isoform X1

      See identical proteins and their annotated locations for XP_005159574.1

      UniProtKB/TrEMBL
      A0A8M2B6K4, B7ZV28
      Related
      ENSDARP00000139576.1, ENSDART00000165008.2
      Conserved Domains (3) summary
      cd09234
      Location:360 → 694
      V_HD-PTP_like; Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains
      cd09239
      Location:2 → 355
      BRO1_HD-PTP_like; Protein-interacting, N-terminal, Bro1-like domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains
      pfam13949
      Location:412 → 697
      ALIX_LYPXL_bnd; ALIX V-shaped domain binding to HIV
    Nucleotide Protein
    Heading Accession and Version

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