pcdh1g18 protocadherin 1 gamma 18 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pcdh1g18provided by ZNC
Official Full Name: protocadherin 1 gamma 18provided by ZNC
Primary source: ZFIN:ZDB-GENE-050609-13
See related: Ensembl:ENSDARG00000099447 AllianceGenome:ZFIN:ZDB-GENE-050609-13
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: DrPcdh1g15; zgc:123239
Summary: Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to act upstream of or within homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to be located in membrane. Predicted to be active 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]
Orthologs: all
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Genomic context

Location:: chromosome: 10

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	10	NC_007121.7 (21737856..21820060)
105	previous assembly	GRCz10 (GCF_000002035.5)	10	NC_007121.6 (21780475..21862676)

Chromosome 10 - NC_007121.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

pcdh18 was expressed in the neural tube and the central nervous system from 12 hpf. Pharyngeal arch primordia, arches, jaws and gills expressed pcdh18, and the molecule was also expressed in some endodermal cells in late embryos.
Title: Expression of protocadherin 18 in the CNS and pharyngeal arches of zebrafish embryos.

Submit: New GeneRIF Correction

General gene information

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Markers

fd09g08.y1 (e-PCR)
- UniSTS:195082

z46076 (e-PCR), detects polymorphism
- UniSTS:238642

fj64d07.x1 (e-PCR)
- UniSTS:188762

fc15h06.x1 (e-PCR)
- UniSTS:192755

fc15h06.x1 (e-PCR)
- UniSTS:192756

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
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
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor 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 18

Names: protocadherin cluster 1 gamma 18; protocadherin cluster 1 gamma 18a

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)

NM_001024117.2 → NP_001019288.2 protocadherin 1 gamma 18

Status: VALIDATED

Source sequence(s)

CR774179

UniProtKB/TrEMBL

I6LC10

Related

ENSDARP00000136147.1, ENSDART00000167997.2

Conserved Domains (4) summary

cd11304
Location:456 → 558

Cadherin_repeat; Cadherin tandem repeat domain

pfam08266
Location:31 → 113

Cadherin_2; Cadherin-like

pfam15974
Location:801 → 920

Cadherin_tail; Cadherin C-terminal cytoplasmic tail, catenin-binding region

pfam16492
Location:686 → 766

Cadherin_C_2; Cadherin cytoplasmic C-terminal