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cntn4 contactin 4 [ Danio rerio (zebrafish) ]

Gene ID: 571349, updated on 2-Nov-2024

Summary

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Official Symbol
cntn4provided by ZNC
Official Full Name
contactin 4provided by ZNC
Primary source
ZFIN:ZDB-GENE-060929-776
See related
Ensembl:ENSDARG00000098161 AllianceGenome:ZFIN:ZDB-GENE-060929-776
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:153573
Summary
Predicted to enable cell-cell adhesion mediator activity. Predicted to be involved in axon guidance; brain development; and cell-cell adhesion. Predicted to be active in axon and plasma membrane. Is expressed in olfactory pit; olfactory placode; and retina. Orthologous to human CNTN4 (contactin 4). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See cntn4 in Genome Data Viewer
Location:
chromosome: 6
Exon count:
25
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (45462251..45840950)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (45461666..45839067)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137496008 Neighboring gene contactin-4 Neighboring gene uncharacterized LOC137496009 Neighboring gene RNA binding motif protein 19 Neighboring gene eph receptor A2 a

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Members of the vertebrate contactin and amyloid precursor protein families interact through a conserved interface. Karuppan SJ, et al. J Biol Chem, 2022 Feb. PMID 34958801, Free PMC Article
  2. Gene duplication, conservation, and divergence of activating transcription factor 5 gene in zebrafish. Zhu H, et al. J Exp Zool B Mol Dev Evol, 2022 Jul. PMID 35226401
  3. Rapid reverse genetic screening using CRISPR in zebrafish. Shah AN, et al. Nat Methods, 2015 Jun. PMID 25867848, Free PMC Article
  4. Identification of vascular and hematopoietic genes downstream of etsrp by deep sequencing in zebrafish. Gomez G, et al. PLoS One, 2012. PMID 22438865, Free PMC Article
  5. Phenotypic Landscape of Schizophrenia-Associated Genes Defines Candidates and Their Shared Functions. Thyme SB, et al. Cell, 2019 Apr 4. PMID 30929901, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables cell-cell adhesion mediator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-cell adhesion 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
  
is_active_in cellular_component ND
No biological Data available
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
contactin-4

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_001080051.1 → NP_001073520.1  contactin-4 precursor

    See identical proteins and their annotated locations for NP_001073520.1

    Status: PROVISIONAL

    Source sequence(s)
    BC124394
    UniProtKB/TrEMBL
    Q08C52
    Related
    ENSDARP00000134774.1, ENSDART00000159863.2
    Conserved Domains (4) summary
    smart00410
    Location:131 → 207
    IG_like; Immunoglobulin like
    cd00063
    Location:601 → 693
    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:410 → 498
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:228 → 316
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    45462251..45840950
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009302657.3 → XP_009300932.1  contactin-4 isoform X1

    See identical proteins and their annotated locations for XP_009300932.1

    UniProtKB/TrEMBL
    A0A8M3ATN0, F1QGN2
    Conserved Domains (4) summary
    smart00410
    Location:131 → 207
    IG_like; Immunoglobulin like
    cd00063
    Location:601 → 693
    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:410 → 498
    I-set; Immunoglobulin I-set domain
    cl11960
    Location:228 → 316
    Ig; Immunoglobulin domain

  2. XM_068221778.1 → XP_068077879.1  contactin-4 isoform X1

  3. XM_068221777.1 → XP_068077878.1  contactin-4 isoform X1

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394665.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    32041..166986
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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