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Cntnap5c contactin associated protein-like 5C [ Rattus norvegicus (Norway rat) ]

Gene ID: 297846, updated on 4-Apr-2024

Summary

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Official Symbol
Cntnap5cprovided by RGD
Official Full Name
contactin associated protein-like 5Cprovided by RGD
Primary source
RGD:1566343
See related
Ensembl:ENSRNOG00000029556 AllianceGenome:RGD:1566343
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
Cntnap5; Caspr5-4; Cntnap5d; RGD1566343
Summary
Predicted to be involved in cell adhesion. Predicted to be integral component of membrane. Orthologous to human CNTNAP5 (contactin associated protein family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward (RPKM 50.8) See more
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Genomic context

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See Cntnap5c in Genome Data Viewer
Location:
13p13
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (3521265..4553884)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (3513615..4546285)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (6312302..7538647)

Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene high mobility group box 1 like 4 Neighboring gene MLV-related proviral Env polyprotein-like, pseudogene 7 Neighboring gene heat shock protein 90 alpha family class A member 1, pseudogene 16 Neighboring gene uncharacterized LOC134481467 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC134481466 Neighboring gene probable crossover junction endonuclease EME2 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene 60S ribosomal protein L36a-like Neighboring gene solute carrier family 25 member 36-like Neighboring gene splicing factor proline and glutamine rich, pseudogene 1

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. New members of the neurexin superfamily: multiple rodent homologues of the human CASPR5 gene. Traut W, et al. Mamm Genome, 2006 Jul. PMID 16845472

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell adhesion IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in basement membrane IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
contactin-associated protein like 5-4
Names
cell recognition molecule Caspr5-3
cell recognition molecule Caspr5-4
cell recognition molecule Caspr5c
cell recognition molecule Caspr5d
contactin associated protein-like 5
contactin-associated protein-like 5d

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_001047866.3 → NP_001041331.1  contactin-associated protein like 5-4 isoform 1 precursor

    See identical proteins and their annotated locations for NP_001041331.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000013
    UniProtKB/Swiss-Prot
    Q0V8T3
    UniProtKB/TrEMBL
    F1LMS4
    Related
    ENSRNOP00000062287.4, ENSRNOT00000067198.4
    Conserved Domains (6) summary
    smart00231
    Location:30 → 174
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain
    cd00057
    Location:63 → 173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00110
    Location:792 → 936
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
    pfam00008
    Location:550 → 581
    EGF; EGF-like domain
    pfam02210
    Location:395 → 521
    Laminin_G_2; Laminin G domain
    pfam12955
    Location:960 → 1027
    DUF3844; Domain of unknown function (DUF3844)

  2. NM_001415869.2 → NP_001402798.1  contactin-associated protein like 5-4 isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000013
    UniProtKB/TrEMBL
    A0A8L2QLT5
    Related
    ENSRNOP00000044394.5, ENSRNOT00000046060.5

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_086031.1 Reference GRCr8

    Range
    3521265..4553884
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039090654.2 → XP_038946582.1  contactin-associated protein like 5-4 isoform X2

    Conserved Domains (4) summary
    cd00057
    Location:63 → 173
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    pfam00008
    Location:551 → 582
    EGF; EGF-like domain
    pfam02210
    Location:209 → 338
    Laminin_G_2; Laminin G domain
    cl22861
    Location:793 → 844
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

  2. XM_063272211.1 → XP_063128281.1  contactin-associated protein like 5-4 isoform X1

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q0V8T3.1 GenPept UniProtKB/Swiss-Prot:Q0V8T3
Q0V8T4.1 GenPept UniProtKB/Swiss-Prot:Q0V8T4

Gene LinkOut

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