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

Gene ID: 363081, updated on 2-Nov-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, Nov 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 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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