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Clstn2 calsyntenin 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 171394, updated on 13-Aug-2019

Summary

Symbol
Clstn2provided by RGD
Full Name
calsyntenin 2provided by RGD
Primary source
RGD:621151
See related
Ensembl:ENSRNOG00000043085
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Cs2; Cstn2
Summary
postsynaptic membrane protein involved in excitatory synaptic transmission [RGD, Feb 2006]
Annotation information
Annotation category: spans an assembly gap
Expression
Biased expression in Brain (RPKM 133.4), Heart (RPKM 72.6) and 3 other tissues See more
Orthologs

Genomic context

See Clstn2 in Genome Data Viewer
Location:
8q31
Exon count:
18
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (105322577..106036821, complement)
106 current Rn_Celera (GCF_000002265.2) 8 AC_000076.1 (97454425..98063036, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 8 NC_005107.3 (104768386..104906597, complement)

Chromosome 8 - NC_005107.4Genomic Context describing neighboring genes Neighboring gene 40S ribosomal protein S17-like Neighboring gene tripartite motif-containing 42 Neighboring gene short transient receptor potential channel 1-like Neighboring gene uncharacterized LOC103690452 Neighboring gene uncharacterized LOC102553116

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
calcium ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
chemical synaptic transmission NAS
Non-traceable Author Statement
more info
PubMed 
homophilic cell adhesion via plasma membrane adhesion molecules 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 synapse assembly IEA
Inferred from Electronic Annotation
more info
 
positive regulation of synapse assembly ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of synaptic transmission IEA
Inferred from Electronic Annotation
more info
 
positive regulation of synaptic transmission ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
Golgi membrane IEA
Inferred from Electronic Annotation
more info
 
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell surface IEA
Inferred from Electronic Annotation
more info
 
cell surface ISO
Inferred from Sequence Orthology
more info
PubMed 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
glutamatergic synapse IEA
Inferred from Electronic Annotation
more info
 
glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of postsynaptic density membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
postsynaptic density ISO
Inferred from Sequence Orthology
more info
PubMed 
postsynaptic membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
postsynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
PubMed 

General protein information

Preferred Names
calsyntenin-2
Names
alc-gamma
alcadein-gamma

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_134377.1NP_599204.1  calsyntenin-2 precursor

    See identical proteins and their annotated locations for NP_599204.1

    Status: PROVISIONAL

    Source sequence(s)
    AJ427342
    UniProtKB/Swiss-Prot
    Q8VDA1
    Related
    ENSRNOP00000070212.1, ENSRNOT00000078760.1
    Conserved Domains (1) summary
    cd11304
    Location:167258
    Cadherin_repeat; Cadherin tandem repeat domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005107.4 Reference Rnor_6.0 Primary Assembly

    Range
    105322577..106036821 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017595430.1XP_017450919.1  calsyntenin-2 isoform X1

Alternate Rn_Celera

Genomic

  1. AC_000076.1 Alternate Rn_Celera

    Range
    97454425..98063036 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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