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

Gene ID: 140581, updated on 2-Nov-2024

Summary

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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
human mouse all
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Bibliography

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Related articles in PubMed

  1. Structure of an L27 domain heterotrimer from cell polarity complex Patj/Pals1/Mals2 reveals mutually independent L27 domain assembly mode. Zhang J, et al. J Biol Chem, 2012 Mar 30. PMID 22337881, Free PMC Article
  2. Evidence that TRPC3 is a molecular component of the 1alpha,25(OH)2D3-activated capacitative calcium entry (CCE) in muscle and osteoblast cells. Santillán G, et al. J Steroid Biochem Mol Biol, 2004 May. PMID 15225788
  3. The tight junction protein, occludin, regulates the directional migration of epithelial cells. Du D, et al. Dev Cell, 2010 Jan 19. PMID 20152177
  4. KIBRA modulates directional migration of podocytes. Duning K, et al. J Am Soc Nephrol, 2008 Oct. PMID 18596123, Free PMC Article
  5. hINADl/PATJ, a homolog of discs lost, interacts with crumbs and localizes to tight junctions in human epithelial cells. Lemmers C, et al. J Biol Chem, 2002 Jul 12. PMID 11964389

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. the crystal structure of a 4-L27 domain-containing heterotrimer derived from the tripartite complex Patj/Pals1/Mals2
    Title: Structure of an L27 domain heterotrimer from cell polarity complex Patj/Pals1/Mals2 reveals mutually independent L27 domain assembly mode.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

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 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 ISO
Inferred from Sequence Orthology
more info
  
located_in cell junction IEA
Inferred from Electronic Annotation
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
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
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

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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)

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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_080398.1 → NP_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:1471 → 1556
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    COG0793
    Location:391 → 511
    CtpA; C-terminal processing protease CtpA/Prc, contains a PDZ domain [Posttranslational modification, protein turnover, chaperones]
    cd00992
    Location:1709 → 1794
    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:8 → 65
    L27_2
    pfam16667
    Location:1400 → 1470
    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_039109186.2 → XP_038965114.1  inaD-like protein isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZMD2, A0A8I6AG04
    Related
    ENSRNOP00000079221.1, ENSRNOT00000095175.2
    Conserved Domains (4) summary
    smart00228
    Location:1244 → 1329
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    COG0793
    Location:391 → 511
    CtpA; C-terminal processing protease CtpA/Prc, contains a PDZ domain [Posttranslational modification, protein turnover, chaperones]
    cd00992
    Location:1731 → 1816
    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:8 → 65
    L27_2

  2. XM_039109188.2 → XP_038965116.1  inaD-like protein isoform X4

    UniProtKB/TrEMBL
    A0A8I6AG04
    Related
    ENSRNOP00000077045.2, ENSRNOT00000101438.2
    Conserved Domains (4) summary
    smart00228
    Location:1244 → 1329
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    COG0793
    Location:391 → 511
    CtpA; C-terminal processing protease CtpA/Prc, contains a PDZ domain [Posttranslational modification, protein turnover, chaperones]
    cd00992
    Location:1681 → 1766
    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:8 → 65
    L27_2

  3. XM_063287101.1 → XP_063143171.1  inaD-like protein isoform X3

  4. XM_063287102.1 → XP_063143172.1  inaD-like protein isoform X5

    UniProtKB/TrEMBL
    A0A8I5ZJD2
    Related
    ENSRNOP00000105981.1, ENSRNOT00000165802.1

  5. XM_063287100.1 → XP_063143170.1  inaD-like protein isoform X2

  6. XM_008763915.4 → XP_008762137.1  inaD-like protein isoform X6

    Conserved Domains (3) summary
    pfam09045
    Location:8 → 65
    L27_2; L27_2
    smart00228
    Location:684 → 773
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    cd00992
    Location:248 → 325
    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_008763916.4 → XP_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:247 → 332
    PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
    cd00992
    Location:485 → 570
    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:176 → 246
    MPDZ_u10; Unstructured region 10 on multiple PDZ protein

  8. XM_063287103.1 → XP_063143173.1  inaD-like protein isoform X7

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
F1MAD2.2 GenPept UniProtKB/Swiss-Prot:F1MAD2

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