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Cdh9 cadherin 9 [ Mus musculus (house mouse) ]

Gene ID: 12565, updated on 2-Nov-2024

Summary

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Official Symbol
Cdh9provided by MGI
Official Full Name
cadherin 9provided by MGI
Primary source
MGI:MGI:107433
See related
Ensembl:ENSMUSG00000025370 AllianceGenome:MGI:107433
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
Summary
Enables cadherin binding activity involved in cell-cell adhesion and identical protein binding activity. Involved in synapse assembly and synaptic membrane adhesion. Located in axon and dendrite. Is active in glutamatergic synapse; hippocampal mossy fiber to CA3 synapse; and synaptic membrane. Is expressed in several structures, including limb; nervous system; sensory organ; and testis. Orthologous to human CDH9 (cadherin 9). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in frontal lobe adult (RPKM 2.5), CNS E18 (RPKM 2.4) and 6 other tissues See more
Orthologs
human all
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Genomic context

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See Cdh9 in Genome Data Viewer
Location:
15 A2; 15 7.91 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (16728641..16857224)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (16728550..16857138)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41276 Neighboring gene STARR-seq mESC enhancer starr_38080 Neighboring gene STARR-seq mESC enhancer starr_38081 Neighboring gene STARR-seq mESC enhancer starr_38082 Neighboring gene predicted gene 2611 Neighboring gene STARR-seq mESC enhancer starr_38085 Neighboring gene STARR-seq mESC enhancer starr_38086 Neighboring gene STARR-seq mESC enhancer starr_38087 Neighboring gene STARR-seq mESC enhancer starr_38088 Neighboring gene STARR-seq mESC enhancer starr_38089 Neighboring gene STARR-seq mESC enhancer starr_38090 Neighboring gene STARR-seq mESC enhancer starr_38091 Neighboring gene predicted gene, 52225 Neighboring gene STARR-seq mESC enhancer starr_38093 Neighboring gene STARR-seq mESC enhancer starr_38094 Neighboring gene STARR-seq mESC enhancer starr_38095 Neighboring gene STARR-seq mESC enhancer starr_38096 Neighboring gene STARR-seq mESC enhancer starr_38097 Neighboring gene transcription factor EC pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data 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

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Related articles in PubMed

  1. Association of CDH11 with Autism Spectrum Disorder Revealed by Matched-gene Co-expression Analysis and Mouse Behavioral Studies. Wu N, et al. Neurosci Bull, 2022 Jan. PMID 34523068, Free PMC Article
  2. Cadherin-9 regulates synapse-specific differentiation in the developing hippocampus. Williams ME, et al. Neuron, 2011 Aug 25. PMID 21867881, Free PMC Article
  3. Segregated expressions of autism risk genes Cdh11 and Cdh9 in autism-relevant regions of developing cerebellum. Wang C, et al. Mol Brain, 2019 May 2. PMID 31046797, Free PMC Article
  4. Breathing control center neurons that promote arousal in mice. Yackle K, et al. Science, 2017 Mar 31. PMID 28360327, Free PMC Article
  5. Cadherin Combinations Recruit Dendrites of Distinct Retinal Neurons to a Shared Interneuronal Scaffold. Duan X, et al. Neuron, 2018 Sep 19. PMID 30197236, Free PMC Article

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. mRNA expression profiles of two autism spectrum disorder-associated cadherins, Cdh9 and Cdh11, in the developing cerebellum, were examined.
    Title: Segregated expressions of autism risk genes Cdh11 and Cdh9 in autism-relevant regions of developing cerebellum.
  2. Study shows that bipolar cells BC2s and BC5s deliver visual input to neurons that compute direction of motion and demonstrate that Cdh8 and Cdh9 are required for assembly of the circuit.
    Title: Type II cadherins guide assembly of a direction-selective retinal circuit.
  3. These observations indicate that cadherin-9 bidirectionally regulates DG-CA3 synapse development and highlight the critical role of differentially expressed molecular cues in establishing specific connections in the mammalian brain.
    Title: Cadherin-9 regulates synapse-specific differentiation in the developing hippocampus.
Submit: New GeneRIF Correction

Variation

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Alleles

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

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

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 cadherin binding involved in cell-cell adhesion IPI
Inferred from Physical Interaction
more info
 PubMed 
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
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
  
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
  
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 homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
  
involved_in synapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in synapse assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in synapse assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in synaptic membrane adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic membrane adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in synaptic membrane adhesion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in synaptic membrane adhesion ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in adherens junction IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in axon IDA
Inferred from Direct Assay
more info
 PubMed 
part_of catenin complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in dendrite IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in hippocampal mossy fiber to CA3 synapse IDA
Inferred from Direct Assay
more info
 PubMed 
located_in hippocampal mossy fiber to CA3 synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in hippocampal mossy fiber to CA3 synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in postsynaptic membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in postsynaptic membrane IMP
Inferred from Mutant Phenotype
more info
 PubMed 
located_in postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in presynaptic membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in presynaptic membrane IMP
Inferred from Mutant Phenotype
more info
 PubMed 
located_in presynaptic membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
cadherin-9
Names
T1-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_009869.2 → NP_033999.1  cadherin-9 preproprotein

    See identical proteins and their annotated locations for NP_033999.1

    Status: VALIDATED

    Source sequence(s)
    AC116724, AC123645
    Consensus CDS
    CCDS49584.1
    UniProtKB/Swiss-Prot
    P70407
    UniProtKB/TrEMBL
    F8WHU6
    Related
    ENSMUSP00000154022.2, ENSMUST00000228307.2
    Conserved Domains (2) summary
    cd11304
    Location:163 → 263
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam01049
    Location:636 → 782
    Cadherin_C; Cadherin cytoplasmic region

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000081.7 Reference GRCm39 C57BL/6J

    Range
    16728641..16857224
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011245337.4 → XP_011243639.1  cadherin-9 isoform X1

    UniProtKB/Swiss-Prot
    P70407
    Conserved Domains (2) summary
    cd11304
    Location:242 → 342
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam01049
    Location:715 → 861
    Cadherin_C; Cadherin cytoplasmic region

  2. XM_006520020.4 → XP_006520083.1  cadherin-9 isoform X2

    See identical proteins and their annotated locations for XP_006520083.1

    UniProtKB/Swiss-Prot
    P70407
    UniProtKB/TrEMBL
    F8WHU6
    Conserved Domains (2) summary
    cd11304
    Location:163 → 263
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam01049
    Location:636 → 782
    Cadherin_C; Cadherin cytoplasmic region
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P70407.2 GenPept UniProtKB/Swiss-Prot:P70407

Gene LinkOut

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

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