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Clstn2 Gene Detail
Summary
  • Symbol
    Clstn2
  • Name
    calsyntenin 2
  • Synonyms
    2900042C18Rik, CS2, Cst-2, CSTN2
  • Feature Type
    protein coding gene
  • IDs
    MGI:1929897
    NCBI Gene: 64085
  • Alliance
    genome feature page
  • Transcription Start Sites
    7 TSS
Location &
Maps
more
  • Sequence Map
    Chr9:97326448-97915234 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 9, 51.06 cM, cytoband E4
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    16652 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1929897
 protein coding gene Chr9:97326448-97915433 (-)
129S1/SvImJ ENSMUSG00200016486
 protein coding gene Chr9:94456297-95045005 (-)
A/J ENSMUSG00195017433
 protein coding gene Chr9:93707394-94296157 (-)
AKR/J ENSMUSG00220037086
 protein coding gene Chr9:94059892-94650552 (-)
BALB/cJ ENSMUSG00180019635
 protein coding gene Chr9:94027126-94615847 (-)
C3H/HeJ ENSMUSG00175012398
 protein coding gene Chr9:94366582-94955265 (-)
C57BL/6NJ ENSMUSG00215011756
 protein coding gene Chr9:94343159-94932011 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0032545
 protein coding gene Chr9:93040371-93622723 (-)
CAST/EiJ ENSTCUG00005012906
 protein coding gene Chr9:94192726-94790403 (-)
CBA/J ENSMUSG00210014558
 protein coding gene Chr9:94208319-94797025 (-)
DBA/2J ENSMUSG00185011368
 protein coding gene Chr9:94394613-94983352 (-)
FVB/NJ ENSMUSG00205014046
 protein coding gene Chr9:94399618-94988337 (-)
JF1/MsJ ENSUMUG00000019377
 protein coding gene Chr9:94156510-94748958 (-)
LP/J ENSMUSG00230015065
 protein coding gene Chr9:94562781-95151458 (-)
NOD/ShiLtJ ENSMUSG00190037244
 protein coding gene Chr9:94029886-94618594 (-)
NZO/HlLtJ ENSMUSG00225017927
 protein coding gene Chr9:94729980-95324188 (-)
PWK/PhJ ENSLUMG00010025935
 protein coding gene Chr9:94121575-94730987 (-)
SPRET/EiJ ENSMSPG00010003738
 protein coding gene Chr9:95916797-96510937 (-)
WSB/EiJ ENSIUOG00005021751
 protein coding gene Chr9:93461546-94051753 (-)



Homology
more
  • Human Ortholog
    CLSTN2, calsyntenin 2
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    CLSTN2, calsyntenin 2
  • Synonyms
    alcagamma, ALC-GAMMA, CDHR13, CS2, CSTN2
  • Links
    NCBI Gene ID: 64084
    UniProt: Q9H4D0

  • Chr Location
    3q23; chr3:139935185-140577397 (+)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    7 phenotypes from 2 alleles in 2 genetic backgrounds
    12 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Homozygous KO mice display deficiency in spatial learning and memory in Morris water and Barnes maze tasks and increased locomotor activity in open field test.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    25
  • GO References
    8
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    654
  • Tissues
    23
  • cDNA Data
    16
  • Literature Summary
    11
Sequences &
Gene Models
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Representative SequencesLengthStrain/SpeciesFlank
genomic ENSMUSG00000032452 Ensembl Gene Model | MGI Sequence Detail 588787 C57BL/6J ±  kb
transcript ENSMUST00000035027 Ensembl | MGI Sequence Detail 4365 Not Applicable  
polypeptide ENSMUSP00000035027 Ensembl | MGI Sequence Detail 966 Not Applicable  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 22
    Genomic 2
    cDNA 17
    Primer pair 1
    Other 2
    Antibodies 1

    Microarray probesets 4
Other
Accession IDs
less
MGI:1924325, MGI:2143055
References
more
  • Summaries
    All 53
    Developmental Gene Expression 11
    Gene Ontology 8
    Phenotypes 12
  • Earliest
    J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
  • Latest
    J:378079 Zheng H, et al., A single-cell spatiotemporal transcriptomic atlas of mouse prefrontal cortex maps dynamics of intratelencephalic neurons during postnatal development. PLoS Biol. 2026 Jan;24(1):e3003594
Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources
Funding Information
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Send questions and comments to User Support. 		last database update
09/08/2026
MGI 6.24 		The Jackson Laboratory