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    patj PATJ crumbs cell polarity complex component [ Danio rerio (zebrafish) ]

    Gene ID: 368723, updated on 2-Nov-2024

    Summary

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    Official Symbol
    patjprovided by ZNC
    Official Full Name
    PATJ crumbs cell polarity complex componentprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030616-129
    See related
    Ensembl:ENSDARG00000024964 AllianceGenome:ZFIN:ZDB-GENE-030616-129
    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
    inadl; wu:fc76h08; si:dz129i22.4; si:busm1-129i22.4
    Summary
    Predicted to be involved in tight junction assembly. Predicted to be active in several cellular components, including apical part of cell; bicellular tight junction; and plasma membrane. Orthologous to human PATJ (PATJ crumbs cell polarity complex component). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See patj in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    51
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (16566690..16758986, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (16540665..16732712, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene immediate early response 5 Neighboring gene PDZK1 interacting protein 1 Neighboring gene T-cell acute lymphocytic leukemia 1 Neighboring gene si:dkey-38n4.2 Neighboring gene TM2 domain containing 1 Neighboring gene nuclear factor I/A Neighboring gene uncharacterized LOC137488917

    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. Harnessing Omics Big Data in Nine Vertebrate Species by Genome-Wide Prioritization of Sequence Variants with the Highest Predicted Deleterious Effect on Protein Function. Rozman V, et al. OMICS, 2018 Jun. PMID 29746212
    2. Transcriptional regulation of the stem cell leukemia gene (SCL)--comparative analysis of five vertebrate SCL loci. Göttgens B, et al. Genome Res, 2002 May. PMID 11997341, Free PMC Article
    3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    involved_in tight junction assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in apical part of cell IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in bicellular tight junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    inaD-like protein
    Names
    InaD-like
    PDZ domain
    mpdz
    mupp1

    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_001127185.1 → NP_001120657.1  inaD-like protein

      Status: PROVISIONAL

      Source sequence(s)
      AL929239, BX322568
      UniProtKB/TrEMBL
      A0A8M1NJG9, F1QUF9, Q1LXN3
      Related
      ENSDARP00000035306.7, ENSDART00000036467.8
      Conserved Domains (4) summary
      pfam09045
      Location:12 → 69
      L27_2; L27_2
      smart00228
      Location:1464 → 1549
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:1746 → 1830
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      pfam16667
      Location:1398 → 1463
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein

    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_007133.7 Reference GRCz11 Primary Assembly

      Range
      16566690..16758986 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068216261.1 → XP_068072362.1  inaD-like protein isoform X4

    2. XM_009296230.4 → XP_009294505.1  inaD-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8M3B5G9
      Conserved Domains (4) summary
      pfam09045
      Location:12 → 69
      L27_2; L27_2
      smart00228
      Location:1444 → 1529
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:1809 → 1893
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      pfam16667
      Location:1378 → 1443
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein

    3. XM_009296231.4 → XP_009294506.1  inaD-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8M3AMY8
      Conserved Domains (4) summary
      pfam09045
      Location:12 → 69
      L27_2; L27_2
      smart00228
      Location:1464 → 1549
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:1800 → 1884
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      pfam16667
      Location:1398 → 1463
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein

    4. XM_005161703.5 → XP_005161760.1  inaD-like protein isoform X1

      See identical proteins and their annotated locations for XP_005161760.1

      UniProtKB/TrEMBL
      A0A2R8QUA7, A0A8M2B8K6
      Related
      ENSDARP00000157175.1, ENSDART00000191880.1
      Conserved Domains (4) summary
      pfam09045
      Location:12 → 69
      L27_2; L27_2
      smart00228
      Location:1464 → 1549
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:1829 → 1913
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      pfam16667
      Location:1398 → 1463
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein

    5. XM_068216260.1 → XP_068072361.1  inaD-like protein isoform X1

    6. XM_009296229.4 → XP_009294504.1  inaD-like protein isoform X1

      See identical proteins and their annotated locations for XP_009294504.1

      UniProtKB/TrEMBL
      A0A2R8QUA7, A0A8M2B8K6
      Conserved Domains (4) summary
      pfam09045
      Location:12 → 69
      L27_2; L27_2
      smart00228
      Location:1464 → 1549
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:1829 → 1913
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      pfam16667
      Location:1398 → 1463
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    Nucleotide Protein
    Heading Accession and Version

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