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    ppfia1 PTPRF interacting protein alpha 1 [ Danio rerio (zebrafish) ]

    Gene ID: 100003520, updated on 12-Sep-2024

    Summary

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    Official Symbol
    ppfia1provided by ZNC
    Official Full Name
    PTPRF interacting protein alpha 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-080214-4
    See related
    Ensembl:ENSDARG00000098674 AllianceGenome:ZFIN:ZDB-GENE-080214-4
    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
    zgc:171298
    Summary
    Orthologous to human PPFIA1 (PTPRF interacting protein alpha 1). [provided by Alliance of Genome Resources, Apr 2022]
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs
    all
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    Genomic context

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    See ppfia1 in Genome Data Viewer
    Location:
    chromosome: 18
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (50942220..50974471)
    105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (50859411..50876414, complement)

    Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene cortactin Neighboring gene phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 gamma Neighboring gene suppressor of tumorigenicity 7 protein homolog Neighboring gene suppression of tumorigenicity 7 Neighboring gene liprin-alpha-1 pseudogene Neighboring gene uncharacterized LOC137488351 Neighboring gene reelin-like Neighboring gene bouncer

    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 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. The PPFIA1-PP2A protein complex promotes trafficking of Kif7 to the ciliary tip and Hedgehog signaling. Liu YC, et al. Sci Signal, 2014 Dec 9. PMID 25492966
    2. Molecular evolution and functional divergence of zebrafish (Danio rerio) cryptochrome genes. Liu C, et al. Sci Rep, 2015 Jan 29. PMID 25630924, Free PMC Article
    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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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    liprin-alpha-1
    Names
    protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 1

    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_001111244.1 → NP_001104714.1  liprin-alpha-1

      See identical proteins and their annotated locations for NP_001104714.1

      Status: PROVISIONAL

      Source sequence(s)
      BC155544
      UniProtKB/TrEMBL
      A9JR75
      Related
      ENSDARP00000139092.3, ENSDART00000158768.3
      Conserved Domains (6) summary
      cd09562
      Location:866 → 936
      SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
      cd09565
      Location:953 → 1018
      SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
      cd09568
      Location:1038 → 1109
      SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
      smart00454
      Location:866 → 932
      SAM; Sterile alpha motif
      pfam00261
      Location:235 → 464
      Tropomyosin; Tropomyosin
      cl12013
      Location:283 → 466
      BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

    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
      50942220..50974471
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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