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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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