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cdh11 cadherin 11, type 2, OB-cadherin (osteoblast) [ Danio rerio (zebrafish) ]

Gene ID: 30461, updated on 11-Apr-2024

Summary

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Official Symbol
cdh11provided by ZNC
Official Full Name
cadherin 11, type 2, OB-cadherin (osteoblast)provided by ZNC
Primary source
ZFIN:ZDB-GENE-980526-170
See related
Ensembl:ENSDARG00000021442 AllianceGenome:ZFIN:ZDB-GENE-980526-170
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
vnc; cdhvn
Summary
Predicted to enable cadherin binding activity and calcium ion binding activity. Acts upstream of or within otolith development; retina development in camera-type eye; and retinal ganglion cell axon guidance. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Predicted to be part of catenin complex. Predicted to be active in adherens junction. Is expressed in cleithrum; nervous system; optic vesicle; and pectoral fin bud. Human ortholog(s) of this gene implicated in Elsahy-Waters syndrome. Orthologous to human CDH11 (cadherin 11). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 7
Exon count:
13
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (43760146..43841069, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (43420923..43501915, complement)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108190696 Neighboring gene uncharacterized LOC108190697 Neighboring gene cadherin 5 Neighboring gene brain expressed, associated with NEDD4, 1

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
  • 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. Zebrafish cadherin-11 participates in retinal differentiation and retinotectal axon projection during visual system development. Clendenon SG, et al. Dev Dyn, 2012 Mar. PMID 22247003
  2. Cadherin expression in the inner ear of developing zebrafish. Novince ZM, et al. Gene Expr Patterns, 2003 Jun. PMID 12799081
  3. Ventral neural cadherin, a novel cadherin expressed in a subset of neural tissues in the zebrafish embryo. Franklin JI, et al. Dev Dyn, 1996 Jun. PMID 8725279
  4. Cadherin-11 controls otolith assembly: evidence for extracellular cadherin activity. Clendenon SG, et al. Dev Dyn, 2009 Aug. PMID 19582870, Free PMC Article
  5. Cadherin-1, -2, and -11 expression and cadherin-2 function in the pectoral limb bud and fin of the developing zebrafish. Liu Q, et al. Dev Dyn, 2003 Dec. PMID 14648850

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Cdh11 expression in the developing visual system and Cdh11 loss-of-function phenotype illustrates the critical role for differential cadherin activity in visual system differentiation and organization.
    Title: Zebrafish cadherin-11 participates in retinal differentiation and retinotectal axon projection during visual system development.
  2. cadherin-11 is found in the basal region of the embryonic limb buds and in the proximal endoskeleton of the larval pectoral fins
    Title: Cadherin-1, -2, and -11 expression and cadherin-2 function in the pectoral limb bud and fin of the developing zebrafish.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables beta-catenin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cadherin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in adherens junction organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
  
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cell-cell adhesion IEA
Inferred from Electronic Annotation
more info
  
involved_in cell-cell adhesion mediated by cadherin IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell-cell junction assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in embryo development IEA
Inferred from Electronic Annotation
more info
  
involved_in epithelium development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
  
involved_in multicellular organism development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within otolith development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within retina development in camera-type eye IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within retinal ganglion cell axon guidance IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of catenin complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
cadherin-11
Names
cadherin 11, osteoblast
ventral neural cadherin

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_131214.1 → NP_571289.1  cadherin-11 precursor

    See identical proteins and their annotated locations for NP_571289.1

    Status: PROVISIONAL

    Source sequence(s)
    BC163442
    UniProtKB/TrEMBL
    A0A286Y9J7, B3DGG4, B3DGH9
    Related
    ENSDARP00000153918.1, ENSDART00000179758.1
    Conserved Domains (3) summary
    cd11304
    Location:171 → 272
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:87 → 165
    CA; Cadherin repeats
    pfam01049
    Location:645 → 793
    Cadherin_C; Cadherin cytoplasmic region

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007118.7 Reference GRCz11 Primary Assembly

    Range
    43760146..43841069 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021477392.1 → XP_021333067.1  cadherin-11 isoform X1

    UniProtKB/TrEMBL
    A0A286Y9J7, B3DGG4, B3DGH9
    Conserved Domains (3) summary
    cd11304
    Location:171 → 272
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:87 → 165
    CA; Cadherin repeats
    pfam01049
    Location:645 → 793
    Cadherin_C; Cadherin cytoplasmic region

  2. XM_005166446.4 → XP_005166503.1  cadherin-11 isoform X1

    See identical proteins and their annotated locations for XP_005166503.1

    UniProtKB/TrEMBL
    A0A286Y9J7, B3DGG4, B3DGH9
    Related
    ENSDARP00000006449.5, ENSDART00000002279.8
    Conserved Domains (3) summary
    cd11304
    Location:171 → 272
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:87 → 165
    CA; Cadherin repeats
    pfam01049
    Location:645 → 793
    Cadherin_C; Cadherin cytoplasmic region

  3. XM_021477391.1 → XP_021333066.1  cadherin-11 isoform X1

    UniProtKB/TrEMBL
    A0A286Y9J7, B3DGG4, B3DGH9
    Related
    ENSDARP00000143868.1, ENSDART00000174592.2
    Conserved Domains (3) summary
    cd11304
    Location:171 → 272
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:87 → 165
    CA; Cadherin repeats
    pfam01049
    Location:645 → 793
    Cadherin_C; Cadherin cytoplasmic region
Nucleotide Protein Strain
Heading Accession and Version

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