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Pcdh7 protocadherin 7 [ Mus musculus (house mouse) ]

Gene ID: 54216, updated on 18-Jun-2019

Summary

Official Symbol
Pcdh7provided by MGI
Official Full Name
protocadherin 7provided by MGI
Primary source
MGI:MGI:1860487
See related
Ensembl:ENSMUSG00000029108
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
Broad expression in bladder adult (RPKM 7.7), cortex adult (RPKM 7.2) and 21 other tissues See more
Orthologs

Genomic context

See Pcdh7 in Genome Data Viewer
Location:
5; 5 C1
Exon count:
7
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 5 NC_000071.6 (57717596..58133236)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (58109260..58523479)

Chromosome 5 - NC_000071.6Genomic Context describing neighboring genes Neighboring gene synaptosomal-associated protein 23 pseudogene Neighboring gene RIKEN cDNA 4932441J04 gene Neighboring gene IMP1 inner mitochondrial membrane peptidase-like pseudogene Neighboring gene predicted gene, 17977 Neighboring gene predicted gene, 46932 Neighboring gene RIKEN cDNA 4930459L07 gene

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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
protocadherin-7
Names
BH-protocadherin (brain-heart)

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_001122758.2NP_001116230.1  protocadherin-7 isoform 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AC125025, AK039737, AK140356, AK165115
    Consensus CDS
    CCDS51505.1
    UniProtKB/TrEMBL
    A0A0A6YY83, Q3USI1, Q8CA35
    Related
    ENSMUSP00000142319.1, ENSMUST00000191837.5
    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  2. NM_001310606.1NP_001297535.1  protocadherin-7 isoform 3 precursor

    See identical proteins and their annotated locations for NP_001297535.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame splice site compared to variant 1. The resulting isoform (3) is shorter than isoform 1.
    Source sequence(s)
    AC125025, AC131036, AC163275
    Consensus CDS
    CCDS80286.1
    UniProtKB/TrEMBL
    E9Q2S0
    Related
    ENSMUSP00000092376.4, ENSMUST00000094783.6
    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  3. NM_001310608.1NP_001297537.1  protocadherin-7 isoform 4 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate exon in the 3' region, which results in a distinct 3' coding region and 3' UTR, compared to variant 1. The resulting isoform (4) has a shorter and different C-terminus, compared to isoform 1.
    Source sequence(s)
    AC125025, AK140356, AK165115, CF746345
    UniProtKB/TrEMBL
    Q3USI1
    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  4. NM_018764.3NP_061234.2  protocadherin-7 isoform 2 precursor

    See identical proteins and their annotated locations for NP_061234.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two 3' coding exons and has an alternate 3' terminal exon, compared to variant 1. The resulting isoform (2) has a shorter and different C-terminus, compared to isoform 1.
    Source sequence(s)
    AC163275, AK140356, AK165115
    Consensus CDS
    CCDS19296.1
    UniProtKB/TrEMBL
    A2RS43, Q3USI1
    Related
    ENSMUSP00000066306.7, ENSMUST00000068110.9
    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000071.6 Reference GRCm38.p4 C57BL/6J

    Range
    57717596..58133236
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006504019.3XP_006504082.1  protocadherin-7 isoform X1

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  2. XM_006504020.3XP_006504083.1  protocadherin-7 isoform X2

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  3. XM_006504022.3XP_006504085.1  protocadherin-7 isoform X3

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  4. XM_006504029.3XP_006504092.1  protocadherin-7 isoform X10

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  5. XM_017320992.1XP_017176481.1  protocadherin-7 isoform X4

  6. XM_006504030.3XP_006504093.1  protocadherin-7 isoform X11

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  7. XM_017320993.1XP_017176482.1  protocadherin-7 isoform X8

  8. XM_006504023.3XP_006504086.1  protocadherin-7 isoform X5

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  9. XM_006504024.3XP_006504087.1  protocadherin-7 isoform X6

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  10. XM_006504025.3XP_006504088.1  protocadherin-7 isoform X7

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
  11. XM_006504028.3XP_006504091.1  protocadherin-7 isoform X9

    Conserved Domains (2) summary
    cd11304
    Location:541635
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam08374
    Location:8421053
    Protocadherin; Protocadherin
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