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Cntn1 contactin 1 [ Mus musculus (house mouse) ]

Gene ID: 12805, updated on 7-Apr-2019

Summary

Official Symbol
Cntn1provided by MGI
Official Full Name
contactin 1provided by MGI
Primary source
MGI:MGI:105980
See related
Ensembl:ENSMUSG00000055022
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
usl; CNTN; F3cam; AW495098
Expression
Biased expression in cerebellum adult (RPKM 20.9), cortex adult (RPKM 17.7) and 4 other tissues See more
Orthologs

Genomic context

See Cntn1 in Genome Data Viewer
Location:
15 E3; 15 46.39 cM
Exon count:
27
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 15 NC_000081.6 (92051165..92341967)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 15 NC_000081.5 (91881596..92172398)

Chromosome 15 - NC_000081.6Genomic Context describing neighboring genes Neighboring gene NADH dehydrogenase (ubiquinone) Fe-S protein 2 pseudogene Neighboring gene leucine-rich repeat LGI family, member 1 pseudogene Neighboring gene predicted gene, 36901 Neighboring gene predicted gene, 26760 Neighboring gene PDZ domain containing RING finger 4

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
carbohydrate binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
Notch signaling pathway IEA
Inferred from Electronic Annotation
more info
 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cerebellum development IMP
Inferred from Mutant Phenotype
more info
PubMed 
nervous system development IEA
Inferred from Electronic Annotation
more info
 
neuron projection development IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of neuron projection development IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of peptidyl-tyrosine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of sodium ion transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
anchored component of membrane IEA
Inferred from Electronic Annotation
more info
 
anchored component of postsynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
anchored component of presynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
membrane IEA
Inferred from Electronic Annotation
more info
 
membrane raft ISO
Inferred from Sequence Orthology
more info
 
myelin sheath HDA PubMed 
plasma membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
contactin-1
Names
neural cell surface protein F3

NCBI Reference Sequences (RefSeq)

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_001159647.1NP_001153119.1  contactin-1 precursor

    See identical proteins and their annotated locations for NP_001153119.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2, 3, and 4 all encode the same protein.
    Source sequence(s)
    AK045710, AK076273, CJ132669, X14943
    Consensus CDS
    CCDS27763.1
    UniProtKB/Swiss-Prot
    P12960
    Related
    ENSMUSP00000067842.5, ENSMUST00000068378.5
    Conserved Domains (8) summary
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
    cd00063
    Location:612699
    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:813895
    fn3; Fibronectin type III domain
    cd04970
    Location:520603
    Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:332408
    Ig; Immunoglobulin domain
  2. NM_001159648.1NP_001153120.1  contactin-1 precursor

    See identical proteins and their annotated locations for NP_001153120.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents use of an alternate promoter, compared to variant 1. Variants 1, 2, 3, and 4 all encode the same protein.
    Source sequence(s)
    AK045710, AK076273, BY299031, X14943
    Consensus CDS
    CCDS27763.1
    UniProtKB/Swiss-Prot
    P12960
    Related
    ENSMUSP00000133063.1, ENSMUST00000169825.7
    Conserved Domains (8) summary
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
    cd00063
    Location:612699
    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:813895
    fn3; Fibronectin type III domain
    cd04970
    Location:520603
    Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:332408
    Ig; Immunoglobulin domain
  3. NM_001358051.1NP_001344980.1  contactin-1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, and 4 all encode the same protein.
    Source sequence(s)
    AC100736, AC125460, AC162863
    Conserved Domains (8) summary
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
    cd00063
    Location:612699
    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:813895
    fn3; Fibronectin type III domain
    cd04970
    Location:520603
    Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:332408
    Ig; Immunoglobulin domain
  4. NM_007727.2NP_031753.1  contactin-1 precursor

    See identical proteins and their annotated locations for NP_031753.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) represents use of an alternate promoter, compared to variant 1. Variants 1, 2, 3, and 4 all encode the same protein.
    Source sequence(s)
    AK045710, AK076273, BC055360, X14943
    Consensus CDS
    CCDS27763.1
    UniProtKB/Swiss-Prot
    P12960
    Related
    ENSMUSP00000000109.4, ENSMUST00000000109.10
    Conserved Domains (8) summary
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
    cd00063
    Location:612699
    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:813895
    fn3; Fibronectin type III domain
    cd04970
    Location:520603
    Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:332408
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000081.6 Reference GRCm38.p4 C57BL/6J

    Range
    92051165..92341967
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006520383.3XP_006520446.1  contactin-1 isoform X2

    Conserved Domains (8) summary
    cd04970
    Location:520604
    Ig6_Contactin_like; Sixth Ig domain of contactin
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First Ig domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third Ig domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth Ig domain of contactin-1
    smart00410
    Location:422501
    IG_like; Immunoglobulin like
    pfam07679
    Location:331408
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:332408
    Ig; Immunoglobulin domain
  2. XM_017316422.1XP_017171911.1  contactin-1 isoform X1

    UniProtKB/Swiss-Prot
    P12960
    Conserved Domains (8) summary
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First immunoglobulin (Ig) domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third immunoglobulin (Ig) domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth immunoglobulin (Ig) domain of contactin-1
    cd00063
    Location:612699
    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:813895
    fn3; Fibronectin type III domain
    cd04970
    Location:520603
    Ig6_Contactin; Sixth immunoglobulin (Ig) domain of contactin
    cl11960
    Location:332408
    Ig; Immunoglobulin domain
  3. XM_017316423.1XP_017171912.1  contactin-1 isoform X2

    Conserved Domains (8) summary
    cd04970
    Location:520604
    Ig6_Contactin_like; Sixth Ig domain of contactin
    cd05727
    Location:134230
    Ig2_Contactin-2-like; Second Ig domain of the neural cell adhesion molecule contactin-2 and similar proteins
    cd05849
    Location:40132
    Ig1_Contactin-1; First Ig domain of contactin-1
    cd05851
    Location:241328
    Ig3_Contactin-1; Third Ig domain of contactin-1
    cd05852
    Location:429501
    Ig5_Contactin-1; Fifth Ig domain of contactin-1
    smart00410
    Location:422501
    IG_like; Immunoglobulin like
    pfam07679
    Location:331408
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:332408
    Ig; Immunoglobulin domain
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