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Cntn4 contactin 4 [ Rattus norvegicus (Norway rat) ]

Gene ID: 116658, updated on 3-Apr-2024

Summary

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Official Symbol
Cntn4provided by RGD
Official Full Name
contactin 4provided by RGD
Primary source
RGD:621361
See related
Ensembl:ENSRNOG00000005652 AllianceGenome:RGD:621361
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
Axcam; Big-2
Summary
Predicted to enable cell-cell adhesion mediator activity. Involved in brain development and neuron projection development. Predicted to be located in extracellular region. Predicted to be anchored component of membrane. Predicted to be active in axon and plasma membrane. Orthologous to human CNTN4 (contactin 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward (RPKM 96.0) See more
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Genomic context

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Location:
4q41
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (140180696..141177771)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (138624584..139622499)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (137785166..138787527)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene contactin 6 Neighboring gene uncharacterized LOC120102360 Neighboring gene uncharacterized LOC120102503 Neighboring gene uncharacterized LOC134486620 Neighboring gene uncharacterized LOC120102501 Neighboring gene uncharacterized LOC120102502 Neighboring gene phosphoglycerate kinase 1, pseudogene 9 Neighboring gene U6 spliceosomal RNA Neighboring gene interleukin 5 receptor subunit alpha Neighboring gene tRNA nucleotidyl transferase 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. Disruption of contactin 4 (CNTN4) results in developmental delay and other features of 3p deletion syndrome. Fernandez T, et al. Am J Hum Genet, 2004 Jun. PMID 15106122, Free PMC Article
  2. Identification and expression of a new splicing variant of FAD-sulfhydryl oxidase in adult rat brain. Radom J, et al. Biochim Biophys Acta, 2006 May. PMID 16806532
  3. Cloning and characterization of the human neural cell adhesion molecule, CNTN4 (alias BIG-2). Hansford LM, et al. Cytogenet Genome Res, 2003. PMID 14571131
  4. Overlapping and differential expression of BIG-2, BIG-1, TAG-1, and F3: four members of an axon-associated cell adhesion molecule subgroup of the immunoglobulin superfamily. Yoshihara Y, et al. J Neurobiol, 1995 Sep. PMID 8586965
  5. Identification of connexin-43 interacting proteins. Singh D, et al. Cell Commun Adhes, 2003 Jul-Dec. PMID 14681019

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables cell-cell adhesion mediator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in brain development IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in dendrite self-avoidance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of neuron differentiation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of neuron differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in nervous system development ISO
Inferred from Sequence Orthology
more info
  
involved_in nervous system development ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in neuron projection development IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in synapse organization IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in side of membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
contactin-4
Names
axonal-associated cell adhesion molecule
brain-derived immunoglobulin superfamily protein 2

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_053879.2 → NP_446331.1  contactin-4 precursor

    See identical proteins and their annotated locations for NP_446331.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000004
    UniProtKB/Swiss-Prot
    Q62845
    UniProtKB/TrEMBL
    A0A0G2JVI9, A6IBJ8
    Related
    ENSRNOP00000007788.5, ENSRNOT00000007788.7
    Conserved Domains (6) summary
    cd04969
    Location:422 → 494
    Ig5_Contactin_like; Fifth Ig domain of contactin
    cd05853
    Location:513 → 597
    Ig6_Contactin-4; Sixth Ig domain of contactin-4
    smart00410
    Location:415 → 494
    IG_like; Immunoglobulin like
    cd00063
    Location:597 → 690
    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:316 → 401
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:25 → 114
    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
    140180696..141177771
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063285413.1 → XP_063141483.1  contactin-4 isoform X1

    UniProtKB/Swiss-Prot
    Q62845
    UniProtKB/TrEMBL
    A6IBJ8

  2. XM_063285419.1 → XP_063141489.1  contactin-4 isoform X6

  3. XM_063285414.1 → XP_063141484.1  contactin-4 isoform X2

  4. XM_063285416.1 → XP_063141486.1  contactin-4 isoform X3

  5. XM_039106945.2 → XP_038962873.1  contactin-4 isoform X2

    UniProtKB/TrEMBL
    A0A0G2JVI9
    Conserved Domains (3) summary
    cd00063
    Location:596 → 689
    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:496 → 502
    Ig; Ig strand A [structural motif]
    cl11960
    Location:496 → 596
    Ig; Immunoglobulin domain

  6. XM_063285417.1 → XP_063141487.1  contactin-4 isoform X4

  7. XM_039106946.2 → XP_038962874.1  contactin-4 isoform X5

    UniProtKB/TrEMBL
    A0A8I6A640, A6IBJ9
    Related
    ENSRNOP00000086586.1
    Conserved Domains (4) summary
    cd00063
    Location:597 → 690
    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:225 → 230
    Ig; Ig strand A [structural motif]
    cd05853
    Location:496 → 597
    Ig6_Contactin-4; Sixth immunoglobulin (Ig) domain of contactin-4
    cl11960
    Location:225 → 313
    Ig; Immunoglobulin domain

  8. XM_063285412.1 → XP_063141482.1  contactin-4 isoform X1

    UniProtKB/Swiss-Prot
    Q62845
    UniProtKB/TrEMBL
    A6IBJ8

  9. XM_017592396.3 → XP_017447885.1  contactin-4 isoform X1

    UniProtKB/Swiss-Prot
    Q62845
    UniProtKB/TrEMBL
    A0A0G2JVI9, A6IBJ8

  10. XM_063285418.1 → XP_063141488.1  contactin-4 isoform X5

    UniProtKB/TrEMBL
    A0A8I6A640

  11. XM_063285415.1 → XP_063141485.1  contactin-4 isoform X2

  12. XM_017592395.3 → XP_017447884.1  contactin-4 isoform X1

    UniProtKB/Swiss-Prot
    Q62845
    UniProtKB/TrEMBL
    A0A0G2JVI9, A6IBJ8
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q62845.1 GenPept UniProtKB/Swiss-Prot:Q62845

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