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    Pdzd7 PDZ domain containing 7 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293996, updated on 9-Dec-2024

    Summary

    Official Symbol
    Pdzd7provided by RGD
    Official Full Name
    PDZ domain containing 7provided by RGD
    Primary source
    RGD:1309882
    See related
    EnsemblRapid:ENSRNOG00000032946 AllianceGenome:RGD:1309882
    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
    Pdzk7
    Summary
    Predicted to enable identical protein binding activity. Predicted to be involved in auditory receptor cell stereocilium organization and sensory perception of sound. Predicted to act upstream of or within several processes, including auditory receptor cell development; detection of mechanical stimulus involved in sensory perception of sound; and establishment of protein localization. Predicted to be located in nucleoplasm; stereocilia ankle link; and stereocilium. Predicted to be part of USH2 complex and stereocilia ankle link complex. Predicted to be active in cilium; plasma membrane; and stereocilium tip. Human ortholog(s) of this gene implicated in Usher syndrome type 2A; Usher syndrome type 2C; and autosomal recessive nonsyndromic deafness 57. Orthologous to human PDZD7 (PDZ domain containing 7). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 23.2), Brain (RPKM 13.6) and 7 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Pdzd7 in Genome Data Viewer
    Location:
    1q54
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (253837454..253856919, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (243888295..243907778, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (264776393..264796206, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene semaphorin 4G Neighboring gene mitochondrial ribosomal protein L43 Neighboring gene twinkle mtDNA helicase Neighboring gene leucine zipper tumor suppressor 2 Neighboring gene sideroflexin 3 Neighboring gene Kazal-type serine peptidase inhibitor domain 1

    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

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of USH2 complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cilium IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cilium ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in stereocilia ankle link ISO
    Inferred from Sequence Orthology
    more info
     
    part_of stereocilia ankle link complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of stereocilia ankle link complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in stereocilium ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in stereocilium tip IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    PDZ domain-containing protein 7

    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_001106362.2NP_001099832.2  PDZ domain-containing protein 7

      See identical proteins and their annotated locations for NP_001099832.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      D4AAZ9
      Related
      ENSRNOP00000045330.3, ENSRNOT00000043623.4
      Conserved Domains (2) summary
      cd00992
      Location:84164
      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) ...
      cd07358
      Location:555632
      HN_PDZD7_like; harmonin_N_like domain, a protein-binding module of PDZ domain-containing protein 7 and related proteins

    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_086019.1 Reference GRCr8

      Range
      253837454..253856919 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006231449.5XP_006231511.1  PDZ domain-containing protein 7 isoform X1

      See identical proteins and their annotated locations for XP_006231511.1

      UniProtKB/TrEMBL
      D4AAZ9
      Conserved Domains (2) summary
      cd00992
      Location:84164
      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) ...
      cd07358
      Location:555632
      HN_PDZD7_like; harmonin_N_like domain, a protein-binding module of PDZ domain-containing protein 7 and related proteins
    2. XM_039109056.2XP_038964984.1  PDZ domain-containing protein 7 isoform X2

      Conserved Domains (2) summary
      cd00992
      Location:84164
      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) ...
      cd07358
      Location:555632
      HN_PDZD7_like; harmonin_N_like domain, a protein-binding module of PDZ domain-containing protein 7 and related proteins
    3. XM_017589038.3XP_017444527.1  PDZ domain-containing protein 7 isoform X3

      UniProtKB/TrEMBL
      A0A8I6ANX8

    RNA

    1. XR_001835405.3 RNA Sequence

    2. XR_010066342.1 RNA Sequence

    3. XR_590686.4 RNA Sequence