U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Pcdh11x protocadherin 11 X-linked [ Mus musculus (house mouse) ]

Gene ID: 245578, updated on 9-Mar-2023

Summary

Official Symbol
Pcdh11xprovided by MGI
Official Full Name
protocadherin 11 X-linkedprovided by MGI
Primary source
MGI:MGI:2442849
See related
Ensembl:ENSMUSG00000034755 AllianceGenome:MGI:2442849
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
PCDHX; Pcdh11; PCDHX11
Summary
This gene encodes a member of the protocadherin family, and cadherin superfamily, of transmembrane proteins containing cadherin domains. The encoded protein may mediate cell-cell adhesion in neuronal tissues in the presence of calcium. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Nov 2012]
Expression
Biased expression in CNS E18 (RPKM 1.6), whole brain E14.5 (RPKM 0.8) and 6 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Pcdh11x in Genome Data Viewer
Location:
X; X E2
Exon count:
11
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) X NC_000086.8 (119199954..119820319)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) X NC_000086.7 (120290238..120910622)

Chromosome X - NC_000086.8Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene predicted gene, 30577 Neighboring gene H2A.B variant histone 3 Neighboring gene gem (nuclear organelle) associated protein 8 pseudogene Neighboring gene phosphoribosyl pyrophosphate synthetase-associated protein 2 pseudogene Neighboring gene predicted gene, 22590

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 (2) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC141524

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in sperm head ISO
Inferred from Sequence Orthology
more info
 
located_in sperm midpiece ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
protocadherin-11 X-linked
Names
protocadherin X-linked 11

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001271809.2NP_001258738.1  protocadherin-11 X-linked isoform a precursor

    Status: REVIEWED

    Source sequence(s)
    AC115298, AC117258, BX005163, BX005240, BX005446
    Conserved Domains (5) summary
    cd11304
    Location:253351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384464
    CA; Cadherin repeats
    pfam08374
    Location:775977
    Protocadherin; Protocadherin
    pfam14650
    Location:11531229
    FAM75; FAM75 family
    cl09101
    Location:28114
    E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
  2. NM_001271810.2NP_001258739.1  protocadherin-11 X-linked isoform b precursor

    Status: REVIEWED

    Source sequence(s)
    AC115298, AC117258, BX005163, BX005240, BX005446
    Consensus CDS
    CCDS72426.1
    UniProtKB/TrEMBL
    B1AZR7
    Related
    ENSMUSP00000108985.4, ENSMUST00000113358.10
    Conserved Domains (5) summary
    cd11304
    Location:253351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384464
    CA; Cadherin repeats
    pfam08374
    Location:775977
    Protocadherin; Protocadherin
    pfam14650
    Location:11431219
    FAM75; FAM75 family
    cl09101
    Location:28114
    E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus
  3. NM_001403634.1NP_001390563.1  protocadherin-11 X-linked isoform c precursor

    Status: REVIEWED

    Source sequence(s)
    AC115298, AC117258, BX005163, BX005240, BX005446, BX255884
    UniProtKB/TrEMBL
    F6ZNL5
  4. NM_001403635.1NP_001390564.1  protocadherin-11 X-linked isoform c precursor

    Status: REVIEWED

    Source sequence(s)
    AC115298, AC117258, BX005163, BX005240, BX005446, BX255884
    UniProtKB/TrEMBL
    F6ZNL5

RNA

  1. NR_073451.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC115298, AC117258, BX005163, BX005240, BX005446
  2. NR_073452.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AC115298, AC117258, BX005163, BX005240, BX005446

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000086.8 Reference GRCm39 C57BL/6J

    Range
    119199954..119820319
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006528392.5XP_006528455.1  protocadherin-11 X-linked isoform X6

    Related
    ENSMUSP00000141581.2, ENSMUST00000193899.2
    Conserved Domains (4) summary
    cd11304
    Location:283381
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:414494
    CA; Cadherin repeats
    pfam08266
    Location:58129
    Cadherin_2; Cadherin-like
    pfam08374
    Location:8051007
    Protocadherin
  2. XM_006528386.5XP_006528449.1  protocadherin-11 X-linked isoform X1

    Conserved Domains (5) summary
    cd11304
    Location:283381
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:414494
    CA; Cadherin repeats
    pfam08266
    Location:58129
    Cadherin_2; Cadherin-like
    pfam08374
    Location:8051007
    Protocadherin
    pfam14642
    Location:11921260
    FAM47; FAM47 family
  3. XM_006528388.4XP_006528451.1  protocadherin-11 X-linked isoform X3

    Conserved Domains (5) summary
    cd11304
    Location:283381
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:414494
    CA; Cadherin repeats
    pfam08266
    Location:58129
    Cadherin_2; Cadherin-like
    pfam08374
    Location:8051007
    Protocadherin
    pfam14642
    Location:11821250
    FAM47; FAM47 family
  4. XM_006528389.5XP_006528452.1  protocadherin-11 X-linked isoform X4

    Conserved Domains (5) summary
    cd11304
    Location:283381
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:414494
    CA; Cadherin repeats
    pfam08266
    Location:58129
    Cadherin_2; Cadherin-like
    pfam08374
    Location:8051007
    Protocadherin
    pfam14642
    Location:11741242
    FAM47; FAM47 family
  5. XM_006528390.5XP_006528453.1  protocadherin-11 X-linked isoform X5

    UniProtKB/TrEMBL
    F6ZNL5
    Related
    ENSMUSP00000108991.5, ENSMUST00000113364.10
    Conserved Domains (5) summary
    cd11304
    Location:253351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384464
    CA; Cadherin repeats
    pfam08266
    Location:2899
    Cadherin_2; Cadherin-like
    pfam08374
    Location:775977
    Protocadherin
    pfam14642
    Location:11621230
    FAM47; FAM47 family
  6. XM_006528387.5XP_006528450.1  protocadherin-11 X-linked isoform X2

    Conserved Domains (5) summary
    cd11304
    Location:283381
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:414494
    CA; Cadherin repeats
    pfam08266
    Location:58129
    Cadherin_2; Cadherin-like
    pfam08374
    Location:8051007
    Protocadherin
    pfam14642
    Location:11841252
    FAM47; FAM47 family

RNA

  1. XR_387045.5 RNA Sequence

  2. XR_387044.4 RNA Sequence

  3. XR_001782746.3 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001081385.1: Suppressed sequence

    Description
    NM_001081385.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.