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Cdh16 cadherin 16 [ Mus musculus (house mouse) ]

Gene ID: 12556, updated on 12-Aug-2019

Summary

Official Symbol
Cdh16provided by MGI
Official Full Name
cadherin 16provided by MGI
Primary source
MGI:MGI:106671
See related
Ensembl:ENSMUSG00000031881
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
Expression
Restricted expression toward kidney adult (RPKM 275.2) See more
Orthologs

Genomic context

See Cdh16 in Genome Data Viewer
Location:
8 D3; 8 53.04 cM
Exon count:
19
Annotation release Status Assembly Chr Location
108 current GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (104601915..104624396, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (107138047..107148161, complement)

Chromosome 8 - NC_000074.6Genomic Context describing neighboring genes Neighboring gene guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-5 pseudogene Neighboring gene pyruvate dehyrogenase phosphatase catalytic subunit 2 Neighboring gene VISTA enhancer mm1666 Neighboring gene predicted gene, 51588 Neighboring gene Ras-related associated with diabetes Neighboring gene predicted gene, 33023

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
basolateral plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
cadherin-16
Names
KSP-cadherin
kidney-specific cadherin

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_001252627.1NP_001239556.1  cadherin-16 isoform 2 precursor

    See identical proteins and their annotated locations for NP_001239556.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AJ609635, AK164546
    Consensus CDS
    CCDS85594.1
    UniProtKB/TrEMBL
    Q3TPA4, Q546A8
    Related
    ENSMUSP00000129663.3, ENSMUST00000163783.3
    Conserved Domains (2) summary
    cd11304
    Location:314417
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:3796
    CA; Cadherin repeats
  2. NM_001252628.1NP_001239557.1  cadherin-16 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001239557.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' UTR and 3' coding region differences, compared to variant 1, which results in a frameshift. The resulting protein (isoform 3) has a distinct C-terminus and is shorter than isoform 1.
    Source sequence(s)
    AK052636, AK164546
    Consensus CDS
    CCDS85595.1
    UniProtKB/TrEMBL
    Q3TPA4, Q8C730
    Related
    ENSMUSP00000148726.1, ENSMUST00000212882.1
    Conserved Domains (2) summary
    cd11304
    Location:344447
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:67126
    CA; Cadherin repeats
  3. NM_007663.3NP_031689.1  cadherin-16 isoform 1 precursor

    See identical proteins and their annotated locations for NP_031689.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AJ609635, AK164546
    Consensus CDS
    CCDS22583.1
    UniProtKB/Swiss-Prot
    O88338
    UniProtKB/TrEMBL
    Q3TPA4, Q546A8
    Related
    ENSMUSP00000148478.1, ENSMUST00000211903.1
    Conserved Domains (2) summary
    cd11304
    Location:344447
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:67126
    CA; Cadherin repeats

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 108 details...Open this link in a new tab

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

Reference GRCm38.p6 C57BL/6J

Genomic

  1. NC_000074.6 Reference GRCm38.p6 C57BL/6J

    Range
    104601915..104624396 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006530629.1XP_006530692.1  cadherin-16 isoform X1

    Conserved Domains (2) summary
    cd11304
    Location:344447
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:67126
    CA; Cadherin repeats
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