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

Gene ID: 315759, updated on 13-Apr-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
Ensembl: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 integral component of plasma membrane. Orthologous to human IGDCC3 (immunoglobulin superfamily DCC subclass member 3). [provided by Alliance of Genome Resources, Apr 2022]
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
  • 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 plasma 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, ENSRNOT00000051353.5
    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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