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pcdh1g11 protocadherin 1 gamma 11 [ Danio rerio (zebrafish) ]

Gene ID: 553999, updated on 28-Oct-2024

Summary

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Official Symbol
pcdh1g11provided by ZNC
Official Full Name
protocadherin 1 gamma 11provided by ZNC
Primary source
ZFIN:ZDB-GENE-050609-7
See related
Ensembl:ENSDARG00000101665 AllianceGenome:ZFIN:ZDB-GENE-050609-7
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
pcdh1g5; pcdh1g9; pcdh1g18
Summary
Predicted to enable calcium ion binding activity. Predicted to act upstream of or within homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to be located in plasma membrane. Orthologous to several human genes including PCDHGB1 (protocadherin gamma subfamily B, 1); PCDHGB2 (protocadherin gamma subfamily B, 2); and PCDHGB3 (protocadherin gamma subfamily B, 3). [provided by Alliance of Genome Resources, Oct 2024]
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Genomic context

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See pcdh1g11 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (21708314..21820060)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (21751082..21862676)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene protocadherin 1 gamma 1 Neighboring gene protocadherin 1 gamma 2 Neighboring gene protocadherin 1 gamma 3 Neighboring gene uncharacterized LOC108191478 Neighboring gene protocadherin 1 gamma b 2 Neighboring gene uncharacterized LOC110440069 Neighboring gene protocadherin 1 gamma 9 Neighboring gene protocadherin 1 gamma b 9 Neighboring gene protocadherin gamma-A11-like Neighboring gene protocadherin 1 gamma 18 Neighboring gene protocadherin gamma-C5-like Neighboring gene protocadherin 1 gamma 22 Neighboring gene protocadherin 1 gamma 33 Neighboring gene protocadherin 1 gamma 26 Neighboring gene protocadherin 1 gamma c 5 Neighboring gene protocadherin 1 gamma c 6 Neighboring gene protocadherin 1 gamma 29 Neighboring gene protocadherin 1 gamma 30 Neighboring gene protocadherin 1 gamma 31 Neighboring gene protocadherin 1 gamma 32 Neighboring gene mucin-4 Neighboring gene cerebellin 17

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. An adhesion code ensures robust pattern formation during tissue morphogenesis. Tsai TY, et al. Science, 2020 Oct 2. PMID 33004519, Free PMC Article
  2. Genomic organization and transcripts of the zebrafish Protocadherin genes. Tada MN, et al. Gene, 2004 Oct 13. PMID 15475161
  3. Gene conversion and the evolution of protocadherin gene cluster diversity. Noonan JP, et al. Genome Res, 2004 Mar. PMID 14993203, Free PMC Article
  4. Multiple variable first exons: a mechanism for cell- and tissue-specific gene regulation. Zhang T, et al. Genome Res, 2004 Jan. PMID 14672974, Free PMC Article
  5. Comparative genomics and diversifying selection of the clustered vertebrate protocadherin genes. Wu Q. Genetics, 2005 Apr. PMID 15744052, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

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

General protein information

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Preferred Names
protocadherin 1 gamma 11
Names
protocadherin cluster 1 gamma 11
protocadherin cluster 1 gamma 18a
protocadherin cluster 1 gamma 5a
protocadherin cluster 1 gamma 9a

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_001024111.2 → NP_001019282.2  protocadherin 1 gamma 11 precursor

    Status: VALIDATED

    Source sequence(s)
    AY576935, CR774179, CT737184
    UniProtKB/TrEMBL
    I6LC08
    Related
    ENSDARP00000131275.1, ENSDART00000160925.2
    Conserved Domains (4) summary
    cd11304
    Location:449 → 550
    Cadherin_repeat; Cadherin tandem repeat domain
    pfam15974
    Location:799 → 875
    Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region
    pfam16492
    Location:678 → 760
    Cadherin_C_2; Cadherin cytoplasmic C-terminal
    cl09101
    Location:24 → 106
    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_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    21708314..21820060
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394782.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    28009..87597
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases
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