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    Patj PATJ, crumbs cell polarity complex component [ Rattus norvegicus (Norway rat) ]

    Gene ID: 140581, updated on 3-Dec-2024

    Summary

    Official Symbol
    Patjprovided by RGD
    Official Full Name
    PATJ, crumbs cell polarity complex componentprovided by RGD
    Primary source
    RGD:1565362
    See related
    EnsemblRapid:ENSRNOG00000007551 AllianceGenome:RGD:1565362
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Inadl; Inadl2; RGD1565362
    Summary
    Predicted to be involved in several processes, including establishment of apical/basal cell polarity; positive regulation of epithelial cell migration; and tight junction assembly. Part of protein-containing complex. Orthologous to human PATJ (PATJ crumbs cell polarity complex component). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 164.7), Lung (RPKM 92.4) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Patj in Genome Data Viewer
    Location:
    5q33
    Exon count:
    48
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (118177557..118480301)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (113061985..113364807)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (117038548..117340308)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134479010 Neighboring gene ribosomal protein S18-like 5 Neighboring gene TM2 domain containing 1 Neighboring gene uncharacterized LOC134486954 Neighboring gene LINE-1 type transposase domain containing 1 Neighboring gene KN motif and ankyrin repeat domains 4

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in establishment of apical/basal cell polarity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in establishment of apical/basal cell polarity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in microtubule organizing center organization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of epithelial cell migration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of microtubule cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of protein localization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tight junction assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in tight junction assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in tight junction assembly ISS
    Inferred from Sequence or Structural Similarity
    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 apical part of cell ISO
    Inferred from Sequence Orthology
    more info
     
    located_in apical part of cell ISO
    Inferred from Sequence Orthology
    more info
     
    located_in apical plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in apical plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in bicellular tight junction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in bicellular tight junction IEA
    Inferred from Electronic Annotation
    more info
     
    located_in bicellular tight junction ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cell junction ISO
    Inferred from Sequence Orthology
    more info
     
    located_in centriolar satellite IEA
    Inferred from Electronic Annotation
    more info
     
    located_in centriolar satellite ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of subapical complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in tight junction ISO
    Inferred from Sequence Orthology
    more info
     
    located_in tight junction ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    inaD-like protein
    Names
    InaD-like 2
    PDZ domain protein
    channel-interacting PDZ domain-containing protein
    pals1-associated tight junction protein
    protein associated to tight junctions

    NCBI Reference Sequences (RefSeq)

    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_080398.1NP_536323.1  inaD-like protein

      See identical proteins and their annotated locations for NP_536323.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      F1MAD2
      UniProtKB/TrEMBL
      A0A8I6AG04
      Related
      ENSRNOP00000010211.6, ENSRNOT00000010211.10
      Conserved Domains (5) summary
      smart00228
      Location:14711556
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      COG0793
      Location:391511
      CtpA; C-terminal processing protease CtpA/Prc, contains a PDZ domain [Posttranslational modification, protein turnover, chaperones]
      cd00992
      Location:17091794
      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) ...
      pfam09045
      Location:865
      L27_2
      pfam16667
      Location:14001470
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      118177557..118480301
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039109186.2XP_038965114.1  inaD-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMD2, A0A8I6AG04
      Related
      ENSRNOP00000079221.1, ENSRNOT00000095175.2
      Conserved Domains (4) summary
      smart00228
      Location:12441329
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      COG0793
      Location:391511
      CtpA; C-terminal processing protease CtpA/Prc, contains a PDZ domain [Posttranslational modification, protein turnover, chaperones]
      cd00992
      Location:17311816
      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) ...
      pfam09045
      Location:865
      L27_2
    2. XM_039109188.2XP_038965116.1  inaD-like protein isoform X4

      UniProtKB/TrEMBL
      A0A8I6AG04
      Related
      ENSRNOP00000077045.2, ENSRNOT00000101438.2
      Conserved Domains (4) summary
      smart00228
      Location:12441329
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      COG0793
      Location:391511
      CtpA; C-terminal processing protease CtpA/Prc, contains a PDZ domain [Posttranslational modification, protein turnover, chaperones]
      cd00992
      Location:16811766
      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) ...
      pfam09045
      Location:865
      L27_2
    3. XM_063287101.1XP_063143171.1  inaD-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8I6AG04
    4. XM_063287102.1XP_063143172.1  inaD-like protein isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZJD2, A0A8I6AG04
      Related
      ENSRNOP00000105981.1, ENSRNOT00000165802.1
    5. XM_063287100.1XP_063143170.1  inaD-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8I6AG04
    6. XM_008763915.4XP_008762137.1  inaD-like protein isoform X6

      Conserved Domains (3) summary
      pfam09045
      Location:865
      L27_2; L27_2
      smart00228
      Location:684773
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:248325
      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) ...
    7. XM_008763916.4XP_008762138.1  inaD-like protein isoform X8

      See identical proteins and their annotated locations for XP_008762138.1

      UniProtKB/TrEMBL
      A0A8I6GME4
      Related
      ENSRNOP00000097148.1, ENSRNOT00000103328.2
      Conserved Domains (3) summary
      smart00228
      Location:247332
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:485570
      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:176246
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    8. XM_063287103.1XP_063143173.1  inaD-like protein isoform X7