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CLSTN3 calsyntenin 3 [ Homo sapiens (human) ]

Gene ID: 9746, updated on 7-Jun-2020

Summary

Official Symbol
CLSTN3provided by HGNC
Official Full Name
calsyntenin 3provided by HGNC
Primary source
HGNC:HGNC:18371
See related
Ensembl:ENSG00000139182 MIM:611324
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CSTN3; CDHR14; alcbeta
Expression
Ubiquitous expression in brain (RPKM 35.5), kidney (RPKM 13.1) and 23 other tissues See more
Orthologs

Genomic context

See CLSTN3 in Genome Data Viewer
Location:
12p13.31
Exon count:
18
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (7130371..7158945)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (7281681..7311541)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene C1RL antisense RNA 1 Neighboring gene RNA, U6 small nuclear 485, pseudogene Neighboring gene retinol binding protein 5 Neighboring gene peroxisomal biogenesis factor 5 Neighboring gene acyl-CoA synthetase medium chain family member 6 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0726, MGC131797, MGC138488

Gene Ontology Provided by GOA

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein localization to synapse IEA
Inferred from Electronic Annotation
more info
 
positive regulation of synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of cell growth IEA
Inferred from Electronic Annotation
more info
 
regulation of presynapse assembly IEA
Inferred from Electronic Annotation
more info
 
synapse assembly IEA
Inferred from Electronic Annotation
more info
 
synaptic transmission, GABAergic IEA
Inferred from Electronic Annotation
more info
 
synaptic transmission, glutamatergic IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
GABA-ergic synapse IEA
Inferred from Electronic Annotation
more info
 
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
dendrite IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
integral component of postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
 
postsynaptic membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein-containing complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
calsyntenin-3
Names
alc-beta
alcadein beta
cadherin-related family member 14

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_014718.4NP_055533.2  calsyntenin-3 precursor

    See identical proteins and their annotated locations for NP_055533.2

    Status: VALIDATED

    Source sequence(s)
    AA864252, AC018653, AJ277460, DA092023
    Consensus CDS
    CCDS8575.1
    UniProtKB/Swiss-Prot
    Q9BQT9
    Related
    ENSP00000266546.6, ENST00000266546.11
    Conserved Domains (1) summary
    cd11304
    Location:32140
    Cadherin_repeat; Cadherin tandem repeat domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    7130371..7158945
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006719163.4XP_006719226.1  calsyntenin-3 isoform X1

    See identical proteins and their annotated locations for XP_006719226.1

    UniProtKB/Swiss-Prot
    Q9BQT9
    Related
    ENST00000537408.1
    Conserved Domains (1) summary
    cd11304
    Location:44152
    Cadherin_repeat; Cadherin tandem repeat domain

Reference GRCh38.p13 PATCHES

Genomic

  1. NW_021160008.1 Reference GRCh38.p13 PATCHES

    Range
    58057..86631
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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