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    Patj PATJ, crumbs cell polarity complex component [ Mus musculus (house mouse) ]

    Gene ID: 12695, updated on 23-Jun-2021

    Summary

    Official Symbol
    Patjprovided by MGI
    Official Full Name
    PATJ, crumbs cell polarity complex componentprovided by MGI
    Primary source
    MGI:MGI:1277960
    See related
    Ensembl:ENSMUSG00000061859
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    C; I; Cipp; Inadl
    Summary
    This gene encodes a multivalent PDZ domain protein, which is expressed exclusively in brain and kidney. This protein selectively interacts with inward rectifier K+ (Kir) family members, N-methyl-D-aspartate receptor subunits, neurexins and neuroligins, as well as cell surface molecules enriched in synaptic membranes. Thus, this protein may serve as a scaffold that brings structurally diverse but functionally connected proteins into close proximity at the synapse. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in cerebellum adult (RPKM 10.7), large intestine adult (RPKM 4.4) and 23 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Patj in Genome Data Viewer
    Location:
    4; 4 C6
    Exon count:
    48
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (98283803..98607840)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (98395560..98719603)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 4 NC_000070.5 (98062517..98386294)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 0610025J13 gene Neighboring gene TM2 domain containing 1 Neighboring gene predicted gene, 40210 Neighboring gene ornithine decarboxylase, structural 1 pseudogene Neighboring gene predicted gene, 35137 Neighboring gene predicted gene, 35073 Neighboring gene LINE-1 type transposase domain containing 1 Neighboring gene KN motif and ankyrin repeat domains 4 Neighboring gene KN motif and ankyrin repeat domains 4, opposite strand

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC176366

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in microtubule organizing center organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of microtubule cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in tight junction assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in apical part of cell IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    is_active_in apical part of cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in apical part of cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in bicellular tight junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    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
    PubMed 
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of subapical complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    inaD-like protein
    Names
    PALS1-associated tight junction protein
    channel-interacting PDZ domain protein
    channel-interacting PDZ domain-containing protein
    inactivation no after-potential D-like protein
    novel ankyrin-repeat 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_001005784.1NP_001005784.1  inaD-like protein isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks multiple 3' exons but has an alternate 3' segment, as compared to variant 1. The encoded isoform (2) has a much shorter and distinct C-terminus, as compared to isoform 1.
      Source sequence(s)
      AK050545, AK077268, AL671229, CD547724, CK340630
      UniProtKB/Swiss-Prot
      Q63ZW7
      Conserved Domains (3) summary
      pfam09045
      Location:865
      L27_2; L27_2
      smart00228
      Location:685774
      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) ...
    2. NM_001005787.1NP_001005787.1  inaD-like protein isoform 4

      See identical proteins and their annotated locations for NP_001005787.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks multiple 5' exons and two 3' exons but has an alternate 5' exon and an alternate 3' segment, as compared to variant 1. The encoded isoform (4) has shorter and distinct N- and C-termini, as compared to isoform 1.
      Source sequence(s)
      BC037607, BU851730, BY105808
      Consensus CDS
      CCDS18377.1
      UniProtKB/Swiss-Prot
      Q63ZW7
      Related
      ENSMUSP00000030290.8, ENSMUST00000030290.8
      Conserved Domains (3) summary
      smart00228
      Location:247332
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:485569
      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:231246
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    3. NM_001355177.1NP_001342106.1  inaD-like protein isoform 5

      Status: REVIEWED

      Source sequence(s)
      AK044043, AK050545, AK077268, AL670941, AL671229, BB617492, BM900173
      Conserved Domains (2) summary
      smart00228
      Location:617702
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:855940
      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) ...
    4. NM_007704.2NP_031730.1  inaD-like protein isoform 3

      See identical proteins and their annotated locations for NP_031730.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks multiple 5' exons but has an alternate 5' exon, as compared to variant 1. The encoded isoform (3) has a much shorter and distinct N-terminus, as compared to isoform 1.
      Source sequence(s)
      AL670941, AV287690, BC037607, BU851730, BY105808
      Consensus CDS
      CCDS18376.1
      UniProtKB/Swiss-Prot
      Q63ZW7
      Related
      ENSMUSP00000099854.4, ENSMUST00000102792.10
      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:231246
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    5. NM_172696.2NP_766284.2  inaD-like protein isoform 1

      See identical proteins and their annotated locations for NP_766284.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK044043, AK050545, AK077268, AL670941, BB617492, CK340630
      Consensus CDS
      CCDS18375.1
      UniProtKB/Swiss-Prot
      Q63ZW7
      UniProtKB/TrEMBL
      A2ADL9
      Related
      ENSMUSP00000049176.4, ENSMUST00000041284.10
      Conserved Domains (4) summary
      smart00228
      Location:14691554
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:17071792
      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:14531468
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      98283803..98607840
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006502704.4XP_006502767.1  inaD-like protein isoform X3

      Conserved Domains (3) summary
      smart00228
      Location:14451530
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:16831768
      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_006502705.4XP_006502768.1  inaD-like protein isoform X4

      Related
      ENSMUSP00000102649.2, ENSMUST00000107034.8
      Conserved Domains (4) summary
      smart00228
      Location:12421327
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:16791764
      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:14531468
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    3. XM_006502699.4XP_006502762.1  inaD-like protein isoform X1

      See identical proteins and their annotated locations for XP_006502762.1

      UniProtKB/Swiss-Prot
      Q63ZW7
      UniProtKB/TrEMBL
      A2ADL9
      Conserved Domains (4) summary
      smart00228
      Location:14691554
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:17071792
      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:14531468
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    4. XM_006502700.4XP_006502763.1  inaD-like protein isoform X1

      See identical proteins and their annotated locations for XP_006502763.1

      UniProtKB/Swiss-Prot
      Q63ZW7
      UniProtKB/TrEMBL
      A2ADL9
      Conserved Domains (4) summary
      smart00228
      Location:14691554
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:17071792
      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:14531468
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    5. XM_006502702.4XP_006502765.1  inaD-like protein isoform X2

      See identical proteins and their annotated locations for XP_006502765.1

      Conserved Domains (4) summary
      smart00228
      Location:14601545
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:16981783
      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:256
      L27_2
      pfam16667
      Location:14441459
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    6. XM_006502703.4XP_006502766.1  inaD-like protein isoform X2

      See identical proteins and their annotated locations for XP_006502766.1

      Conserved Domains (4) summary
      smart00228
      Location:14601545
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:16981783
      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:256
      L27_2
      pfam16667
      Location:14441459
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    7. XM_006502701.1XP_006502764.1  inaD-like protein isoform X1

      See identical proteins and their annotated locations for XP_006502764.1

      UniProtKB/Swiss-Prot
      Q63ZW7
      UniProtKB/TrEMBL
      A2ADL9
      Conserved Domains (4) summary
      smart00228
      Location:14691554
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:17071792
      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:14531468
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
    8. XM_006502707.4XP_006502770.1  inaD-like protein isoform X5

      Conserved Domains (3) summary
      smart00228
      Location:243328
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:481566
      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:227242
      MPDZ_u10; Unstructured region 10 on multiple PDZ protein
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