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    Igdcc3 immunoglobulin superfamily, DCC subclass, member 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315759, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Igdcc3provided by RGD
    Official Full Name
    immunoglobulin superfamily, DCC subclass, member 3provided by RGD
    Primary source
    RGD:1307338
    See related
    EnsemblRapid:ENSRNOG00000030800 AllianceGenome:RGD:1307338
    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
    Punc
    Summary
    Predicted to be involved in cell-cell adhesion. Predicted to act upstream of or within neuromuscular process controlling balance. Predicted to be located in membrane. Orthologous to human IGDCC3 (immunoglobulin superfamily DCC subclass member 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 8.0), Kidney (RPKM 5.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Igdcc3 in Genome Data Viewer
    Location:
    8q24
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (74556348..74603136)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (65661165..65707961)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (70630546..70685882)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene dipeptidylpeptidase 8 Neighboring gene immunoglobulin superfamily, DCC subclass, member 4 Neighboring gene peptidyl-prolyl cis-trans isomerase NIMA-interacting 4-like Neighboring gene U5 spliceosomal RNA Neighboring gene ribosomal protein S9, pseudogene 14

    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. Impaired motor coordination in mice that lack punc. Yang W, et al. Mol Cell Biol, 2001 Sep. PMID 11486040, Free PMC Article
    2. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    3. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within neuromuscular process controlling balance ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    immunoglobulin superfamily DCC subclass member 3
    Names
    putative neuronal cell adhesion molecule

    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_001372159.2 → NP_001359088.1  immunoglobulin superfamily DCC subclass member 3 isoform 1 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A6J5E1, D3ZQ86
      Related
      ENSRNOP00000039295.3, ENSRNOT00000051353.6
      Conserved Domains (5) summary
      smart00410
      Location:254 → 336
      IG_like; Immunoglobulin like
      cd00063
      Location:434 → 527
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:554 → 613
      fn3; Fibronectin type III domain
      pfam07679
      Location:341 → 427
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:54 → 145
      Ig; Immunoglobulin domain

    2. NM_001372161.2 → NP_001359090.1  immunoglobulin superfamily DCC subclass member 3 isoform 2 precursor

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A6J5E1
      Conserved Domains (5) summary
      smart00410
      Location:254 → 336
      IG_like; Immunoglobulin like
      cd00063
      Location:434 → 527
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00041
      Location:554 → 613
      fn3; Fibronectin type III domain
      pfam07679
      Location:341 → 427
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:54 → 145
      Ig; Immunoglobulin domain

    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_086026.1 Reference GRCr8

      Range
      74556348..74603136
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108160.1: Suppressed sequence

      Description
      NM_001108160.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: IGDCC3 (GeneID:9543).
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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