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CLSTN3 calsyntenin 3 [ Homo sapiens (human) ]

Gene ID: 9746, updated on 22-Sep-2022

Summary

Official Symbol
CLSTN3provided by HGNC
Official Full Name
calsyntenin 3provided by HGNC
Primary source
HGNC:HGNC:18371
See related
Ensembl:ENSG00000139182 MIM:611324; AllianceGenome:HGNC:18371
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
Summary
Predicted to enable calcium ion binding activity. Predicted to be involved in positive regulation of synapse assembly and positive regulation of synaptic transmission. Predicted to act upstream of or within several processes, including chemical synaptic transmission; positive regulation of protein localization to synapse; and synapse assembly. Predicted to be located in postsynaptic density. Predicted to be part of protein-containing complex. Predicted to be active in several cellular components, including GABA-ergic synapse; glutamatergic synapse; and postsynaptic membrane. Predicted to be integral component of postsynaptic density membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 35.5), kidney (RPKM 13.1) and 23 other tissues See more
Orthologs
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Genomic context

See CLSTN3 in Genome Data Viewer
Location:
12p13.31
Exon count:
20
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (7129093..7158945)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (7143523..7172097)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (7282967..7311541)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene complement C1r subcomponent like Neighboring gene C1RL antisense RNA 1 Neighboring gene RNA, U6 small nuclear 485, pseudogene Neighboring gene retinol binding protein 5 Neighboring gene uncharacterized LOC124902869 Neighboring gene peroxisomal biogenesis factor 5

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
enables X11-like protein binding IEA
Inferred from Electronic Annotation
more info
 
enables amyloid-beta binding IEA
Inferred from Electronic Annotation
more info
 
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
enables kinesin binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of protein localization to synapse IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of cell growth IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of presynapse assembly IEA
Inferred from Electronic Annotation
more info
 
involved_in synapse assembly IEA
Inferred from Electronic Annotation
more info
 
involved_in synaptic transmission, GABAergic IEA
Inferred from Electronic Annotation
more info
 
involved_in synaptic transmission, glutamatergic IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in GABA-ergic synapse IEA
Inferred from Electronic Annotation
more info
 
located_in Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in dendrite IEA
Inferred from Electronic Annotation
more info
 
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
located_in postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in postsynaptic membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of 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)

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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_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
    Q5UE57, 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 Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    7129093..7158945
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047429921.1XP_047285877.1  calsyntenin-3 isoform X2

    UniProtKB/Swiss-Prot
    Q5UE57
    Related
    ENST00000537408.1
  2. XM_047429919.1XP_047285875.1  calsyntenin-3 isoform X1

  3. XM_047429920.1XP_047285876.1  calsyntenin-3 isoform X2

    UniProtKB/Swiss-Prot
    Q5UE57

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_021160008.1 Reference GRCh38.p14 PATCHES

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

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    7143523..7172097
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)