U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Pcdh11x protocadherin 11 X-linked [ Rattus norvegicus (Norway rat) ]

Gene ID: 317204, updated on 30-Mar-2024

Summary

Go to the top of the page Help
Symbol
Pcdh11xprovided by RGD
Full Name
protocadherin 11 X-linkedprovided by RGD
Primary source
RGD:1562864
See related
Ensembl:ENSRNOG00000069840 AllianceGenome:RGD:1562864
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1562864
Summary
Orthologous to human PCDH11X (protocadherin 11 X-linked). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 86.9), Testes (RPKM 33.5) and 5 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
Xq31
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (90279191..90974671)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (86058348..86751078)
106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (92596355..93341412)

Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene uncharacterized LOC108349237 Neighboring gene uncharacterized LOC134484094 Neighboring gene VENT homeobox Neighboring gene U6 spliceosomal RNA Neighboring gene 60 kDa heat shock protein, mitochondrial pseudogene Neighboring gene ribosomal protein L27, pseudogene 9

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Docking motif-guided mapping of the interactome of protein phosphatase-1. Hendrickx A, et al. Chem Biol, 2009 Apr 24. PMID 19389623
  2. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
protocadherin-11 X-linked
Names
protocadherin-11 X-linked-like

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001271228.1 → NP_001258157.1  protocadherin-11 X-linked precursor

    See identical proteins and their annotated locations for NP_001258157.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021
    UniProtKB/TrEMBL
    A0A8I6AKA9
    Related
    ENSRNOP00000093805.1, ENSRNOT00000106182.1
    Conserved Domains (4) summary
    cd11304
    Location:253 → 351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384 → 464
    CA; Cadherin repeats
    pfam08374
    Location:775 → 977
    Protocadherin; Protocadherin
    cl09101
    Location:28 → 114
    E_set; Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086039.1 Reference GRCr8

    Range
    90279191..90974671
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039099733.2 → XP_038955661.1  protocadherin-11 X-linked isoform X1

    Conserved Domains (5) summary
    cd11304
    Location:253 → 351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384 → 464
    CA; Cadherin repeats
    pfam08266
    Location:28 → 99
    Cadherin_2; Cadherin-like
    pfam08374
    Location:775 → 977
    Protocadherin
    pfam14642
    Location:1148 → 1223
    FAM47; FAM47 family

  2. XM_039099735.2 → XP_038955663.1  protocadherin-11 X-linked isoform X3

    UniProtKB/TrEMBL
    A0A8I6AEP1
    Related
    ENSRNOP00000091088.1
    Conserved Domains (5) summary
    cd11304
    Location:253 → 351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384 → 464
    CA; Cadherin repeats
    pfam08266
    Location:28 → 99
    Cadherin_2; Cadherin-like
    pfam08374
    Location:775 → 977
    Protocadherin
    pfam14642
    Location:1138 → 1213
    FAM47; FAM47 family

  3. XM_039099734.2 → XP_038955662.1  protocadherin-11 X-linked isoform X2

    Conserved Domains (5) summary
    cd11304
    Location:253 → 351
    Cadherin_repeat; Cadherin tandem repeat domain
    smart00112
    Location:384 → 464
    CA; Cadherin repeats
    pfam08266
    Location:28 → 99
    Cadherin_2; Cadherin-like
    pfam08374
    Location:775 → 977
    Protocadherin
    pfam14642
    Location:1146 → 1221
    FAM47; FAM47 family
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous