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    Igdcc4 immunoglobulin superfamily, DCC subclass, member 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 363081, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Igdcc4provided by RGD
    Official Full Name
    immunoglobulin superfamily, DCC subclass, member 4provided by RGD
    Primary source
    RGD:1310919
    See related
    EnsemblRapid:ENSRNOG00000033496 AllianceGenome:RGD:1310919
    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
    Nope
    Summary
    Predicted to be involved in cell-cell adhesion. Orthologous to human IGDCC4 (immunoglobulin superfamily DCC subclass member 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 157.1), Brain (RPKM 51.1) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Igdcc4 in Genome Data Viewer
    Location:
    8q24
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (74517082..74552834)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (65621893..65657651)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (70591561..70627329)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene ATP synthase membrane subunit DAPIT, mitochondrial-like Neighboring gene dipeptidylpeptidase 8 Neighboring gene peptidyl-prolyl cis-trans isomerase NIMA-interacting 4-like Neighboring gene immunoglobulin superfamily, DCC subclass, member 3 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
    • 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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    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
    		  

    General protein information

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    Preferred Names
    immunoglobulin superfamily DCC subclass member 4
    Names
    neighbor of Punc E11

    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_001108767.4 → NP_001102237.2  immunoglobulin superfamily DCC subclass member 4 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      F7EL93
      Related
      ENSRNOP00000063585.4, ENSRNOT00000067016.6
      Conserved Domains (5) summary
      smart00410
      Location:256 → 337
      IG_like; Immunoglobulin like
      cd00063
      Location:856 → 948
      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:436 → 519
      fn3; Fibronectin type III domain
      pfam07679
      Location:151 → 236
      I-set; Immunoglobulin I-set domain
      cl11960
      Location:356 → 428
      Ig; Immunoglobulin domain

    2. NM_001415707.2 → NP_001402636.1  immunoglobulin superfamily DCC subclass member 4 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      A0A8I6ASC6
      Related
      ENSRNOP00000097275.1, ENSRNOT00000100571.2

    3. NM_001415708.2 → NP_001402637.1  immunoglobulin superfamily DCC subclass member 4 isoform 3 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008

    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
      74517082..74552834
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017596073.3 → XP_017451562.1  immunoglobulin superfamily DCC subclass member 4 isoform X2

      Related
      ENSRNOP00000102632.1, ENSRNOT00000155516.1
      Conserved Domains (6) summary
      smart00408
      Location:162 → 224
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:256 → 337
      IG_like; Immunoglobulin like
      cd00063
      Location:857 → 949
      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 ...
      pfam07679
      Location:341 → 428
      I-set; Immunoglobulin I-set domain
      pfam00041
      Location:436 → 521
      fn3; Fibronectin type III domain
      cl11960
      Location:356 → 428
      Ig; Immunoglobulin domain

    2. XM_063265768.1 → XP_063121838.1  immunoglobulin superfamily DCC subclass member 4 isoform X3

    3. XM_039081745.2 → XP_038937673.1  immunoglobulin superfamily DCC subclass member 4 isoform X1

      Related
      ENSRNOP00000108792.1, ENSRNOT00000155695.1
      Conserved Domains (6) summary
      smart00410
      Location:342 → 423
      IG_like; Immunoglobulin like
      cd00063
      Location:942 → 1034
      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:522 → 607
      fn3; Fibronectin type III domain
      pfam13927
      Location:237 → 308
      Ig_3; Immunoglobulin domain
      cd00096
      Location:443 → 451
      Ig; Ig strand B [structural motif]
      cl11960
      Location:442 → 514
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version

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