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    Ptchd3 patched domain containing 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 688333, updated on 4-Jan-2025

    Summary

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    Symbol
    Ptchd3provided by RGD
    Full Name
    patched domain containing 3provided by RGD
    Primary source
    RGD:1590039
    See related
    EnsemblRapid:ENSRNOG00000046946 AllianceGenome:RGD:1590039
    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
    Summary
    Located in sperm midpiece. Orthologous to human PTCHD3 (patched domain containing 3 (gene/pseudogene)). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Restricted expression toward (RPKM 92.0) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ptchd3 in Genome Data Viewer
    Location:
    10q32.3
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (107594881..107606842)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (107097551..107108575)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (111031490..111042545)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L23a, pseudogene 13 Neighboring gene F-actin-capping protein subunit beta Neighboring gene small nucleolar RNA SNORA48 Neighboring gene zinc finger protein 950 like 6 Neighboring gene zinc finger protein 950 like 5 Neighboring gene zinc finger protein 431-like

    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
    • 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. Male germ cell-specific expression of a novel Patched-domain containing gene Ptchd3. Fan J, et al. Biochem Biophys Res Commun, 2007 Nov 23. PMID 17904097
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in sperm midpiece IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in sperm midpiece ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    patched domain-containing protein 3

    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_001408928.1 → NP_001395857.1  patched domain-containing protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/Swiss-Prot
      M0R3Q7
      Related
      ENSRNOP00000063978.1, ENSRNOT00000074372.4

    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_086028.1 Reference GRCr8

      Range
      107594881..107606842
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063269877.1 → XP_063125947.1  patched domain-containing protein 3 isoform X3

    2. XM_063269876.1 → XP_063125946.1  patched domain-containing protein 3 isoform X1

    3. XM_039087576.2 → XP_038943504.2  patched domain-containing protein 3 isoform X4

    4. XM_039087577.2 → XP_038943505.1  patched domain-containing protein 3 isoform X2

      UniProtKB/TrEMBL
      A6HLQ5
      Conserved Domains (1) summary
      cl25655
      Location:2 → 539
      Patched; Patched family

    RNA

    1. XR_010055255.1 RNA Sequence

    2. XR_010055256.1 RNA Sequence

    3. XR_010055257.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    M0R3Q7.1 GenPept UniProtKB/Swiss-Prot:M0R3Q7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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