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Cntn6 contactin 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 27256, updated on 2-Nov-2024

Summary

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Official Symbol
Cntn6provided by RGD
Official Full Name
contactin 6provided by RGD
Primary source
RGD:62008
See related
EnsemblRapid:ENSRNOG00000032517 AllianceGenome:RGD:62008
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
NB-3
Summary
Predicted to be involved in Notch signaling pathway and cell adhesion. Predicted to act upstream of or within positive regulation of Notch signaling pathway. Predicted to be located in plasma membrane. Predicted to be active in parallel fiber to Purkinje cell synapse and presynaptic membrane. Orthologous to human CNTN6 (contactin 6). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Restricted expression toward (RPKM 59.7) See more
Orthologs
human mouse all
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Genomic context

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See Cntn6 in Genome Data Viewer
Location:
4q41
Exon count:
23
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (138911090..139307339)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (137354886..137751712)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (136512201..136904355)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ATP binding cassette subfamily F member 2, pseudogene 2 Neighboring gene uncharacterized LOC120102360 Neighboring gene uncharacterized LOC120102503 Neighboring gene contactin 4

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. Contribution of the neural cell recognition molecule NB-3 to synapse formation between parallel fibers and Purkinje cells in mouse. Sakurai K, et al. Dev Neurobiol, 2009 Oct. PMID 19672956
  2. Impaired motor coordination in mice lacking neural recognition molecule NB-3 of the contactin/F3 subgroup. Takeda Y, et al. J Neurobiol, 2003 Sep 5. PMID 12884264
  3. Novel neural adhesion molecules in the Contactin/F3 subgroup of the immunoglobulin superfamily: isolation and characterization of cDNAs from rat brain. Ogawa J, et al. Neurosci Lett, 1996 Nov 8. PMID 8945756
  4. Adropin is a brain membrane-bound protein regulating physical activity via the NB-3/Notch signaling pathway in mice. Wong CM, et al. J Biol Chem, 2014 Sep 12. PMID 25074942, Free PMC Article
  5. NB-3/Notch1 pathway via Deltex1 promotes neural progenitor cell differentiation into oligodendrocytes. Cui XY, et al. J Biol Chem, 2004 Jun 11. PMID 15082708

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. NB-3/Notch1 pathway promotes neural progenitor cell differentiation into oligodendrocytes via Deltex1.
    Title: NB-3/Notch1 pathway via Deltex1 promotes neural progenitor cell differentiation into oligodendrocytes.
  2. Immunohistochemistry of the cerebellum from 3-month-old rats demonstrates that lobules 1-8 are distinct from lobules 9 and 10 with respect to localization of NB-3 protein.
    Title: Impaired motor coordination in mice lacking neural recognition molecule NB-3 of the contactin/F3 subgroup.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in Notch signaling pathway IEA
Inferred from Electronic Annotation
more info
  
involved_in cell adhesion IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of Notch signaling pathway IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within positive regulation of Notch signaling pathway ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in parallel fiber to Purkinje cell synapse IEA
Inferred from Electronic Annotation
more info
  
is_active_in parallel fiber to Purkinje cell synapse ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in presynapse ISO
Inferred from Sequence Orthology
more info
  
located_in presynaptic membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in presynaptic membrane ISO
Inferred from Sequence Orthology
more info
  
located_in side of membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
contactin-6
Names
neural adhesion molecule
neural recognition molecule NB-3

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_013225.2 → NP_037357.1  contactin-6 precursor

    See identical proteins and their annotated locations for NP_037357.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/Swiss-Prot
    P97528
    UniProtKB/TrEMBL
    F1LRK7
    Related
    ENSRNOP00000047690.6, ENSRNOT00000051645.6
    Conserved Domains (5) summary
    smart00060
    Location:903 → 983
    FN3; Fibronectin type 3 domain
    cd00063
    Location:598 → 691
    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 ...
    cd00096
    Location:319 → 322
    Ig; Ig strand A [structural motif]
    cd04969
    Location:408 → 496
    Ig5_Contactin; Fifth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:319 → 403
    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_086022.1 Reference GRCr8

    Range
    138911090..139307339
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039107156.2 → XP_038963084.1  contactin-6 isoform X1

    UniProtKB/Swiss-Prot
    P97528
    UniProtKB/TrEMBL
    F1LRK7
    Conserved Domains (5) summary
    smart00060
    Location:903 → 983
    FN3; Fibronectin type 3 domain
    cd00063
    Location:598 → 691
    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 ...
    cd00096
    Location:319 → 322
    Ig; Ig strand A [structural motif]
    cd04969
    Location:408 → 496
    Ig5_Contactin; Fifth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:319 → 403
    Ig; Immunoglobulin domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P97528.1 GenPept UniProtKB/Swiss-Prot:P97528

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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