CLSTN3 (calsyntenin 3) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: CLSTN3 (calsyntenin 3) Pan paniscus
Analyze
Symbol: CLSTN3
Name: calsyntenin 3
RGD ID: 11969975
Description: ENCODES a protein that exhibits enzyme inhibitor activity (ortholog); INVOLVED IN adaptive thermogenesis (ortholog); cold-induced thermogenesis (ortholog); excitatory synapse assembly (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); developmental and epileptic encephalopathy 21 (ortholog); genetic disease (ortholog); FOUND IN endoplasmic reticulum (ortholog); endoplasmic reticulum membrane (ortholog); GABA-ergic synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: calsyntenin-3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21012,694,523 - 12,723,611 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11212,691,827 - 12,720,193 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0127,260,361 - 7,288,903 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1127,175,951 - 7,204,526 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl127,175,951 - 7,204,526 (+)Ensemblpanpan1.1panPan2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
CLSTN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21012,694,523 - 12,723,611 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11212,691,827 - 12,720,193 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0127,260,361 - 7,288,903 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1127,175,951 - 7,204,526 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl127,175,951 - 7,204,526 (+)Ensemblpanpan1.1panPan2
CLSTN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38127,129,093 - 7,158,945 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl127,129,698 - 7,158,945 (+)EnsemblGRCh38hg38GRCh38
GRCh37127,282,967 - 7,311,541 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36127,174,234 - 7,202,808 (+)NCBINCBI36Build 36hg18NCBI36
Build 34127,174,236 - 7,201,985NCBI
Celera128,859,131 - 8,887,704 (+)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef127,095,705 - 7,124,262 (+)NCBIHuRef
CHM1_1127,281,942 - 7,310,507 (+)NCBICHM1_1
T2T-CHM13v2.0127,142,174 - 7,172,097 (+)NCBIT2T-CHM13v2.0
Clstn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396124,407,715 - 124,441,743 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6124,407,540 - 124,441,753 (-)EnsemblGRCm39 Ensembl
GRCm386124,430,756 - 124,464,784 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6124,430,581 - 124,464,794 (-)EnsemblGRCm38mm10GRCm38
MGSCv376124,380,774 - 124,414,802 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366124,396,386 - 124,430,343 (-)NCBIMGSCv36mm8
Celera6126,121,281 - 126,154,711 (-)NCBICelera
Cytogenetic Map6F2NCBI
cM Map659.15NCBI
Clstn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,017,795 - 159,051,069 (-)NCBIGRCr8
mRatBN7.24157,331,494 - 157,364,769 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4157,331,494 - 157,364,769 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4163,554,605 - 163,588,021 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04159,337,510 - 159,370,931 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04157,982,990 - 158,016,254 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,044,736 - 157,078,013 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,043,925 - 157,078,130 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,064,529 - 224,097,591 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44160,631,047 - 160,665,193 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14160,875,982 - 160,910,129 (-)NCBI
Celera4146,072,428 - 146,105,625 (-)NCBICelera
Cytogenetic Map4q42NCBI
Clstn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554134,690,637 - 4,719,929 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554134,690,637 - 4,719,929 (+)NCBIChiLan1.0ChiLan1.0
CLSTN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12737,879,047 - 37,913,317 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2737,879,269 - 37,913,281 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha278,703,426 - 8,737,782 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02738,232,299 - 38,265,672 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2738,232,319 - 38,258,846 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12738,106,420 - 38,140,738 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02738,147,404 - 38,181,685 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0278,181,467 - 8,215,782 (+)NCBIUU_Cfam_GSD_1.0
Clstn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945101,963,756 - 102,005,760 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936709637,641 - 673,314 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936709641,615 - 673,309 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLSTN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl563,572,065 - 63,599,525 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1563,572,062 - 63,612,177 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2565,899,699 - 65,927,179 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLSTN3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1117,197,725 - 7,226,479 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl117,197,539 - 7,226,651 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666063984,091 - 1,012,812 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clstn3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248603,709,139 - 3,738,221 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248603,710,121 - 3,737,617 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSPPAT00000041330   ⟹   ENSPPAP00000018597
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl127,175,951 - 7,204,526 (+)Ensembl
RefSeq Acc Id: ENSPPAT00000041343   ⟹   ENSPPAP00000018610
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl127,178,408 - 7,203,670 (+)Ensembl
RefSeq Acc Id: ENSPPAT00000041354   ⟹   ENSPPAP00000018622
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
PanPan1.1 Ensembl127,201,966 - 7,203,588 (+)Ensembl
RefSeq Acc Id: XM_003820254   ⟹   XP_003820302
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21012,694,523 - 12,723,611 (+)NCBI
NHGRI_mPanPan11212,691,827 - 12,720,193 (+)NCBI
Mhudiblu_PPA_v0127,260,361 - 7,288,903 (+)NCBI
PanPan1.1127,175,951 - 7,204,526 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008973652   ⟹   XP_008971900
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21012,697,610 - 12,723,611 (+)NCBI
NHGRI_mPanPan11212,694,369 - 12,720,193 (+)NCBI
Mhudiblu_PPA_v0127,262,899 - 7,288,737 (+)NCBI
PanPan1.1127,178,565 - 7,204,526 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003820302 (Get FASTA)   NCBI Sequence Viewer  
  XP_008971900 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000018597
  ENSPPAP00000018597.1
  ENSPPAP00000018610
  ENSPPAP00000018610.1
  ENSPPAP00000018622.1
Reference Protein Sequences
RefSeq Acc Id: XP_003820302   ⟸   XM_003820254
- Peptide Label: isoform X2
- UniProtKB: A0A2R9AML8 (UniProtKB/TrEMBL),   A0A2R9AS56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008971900   ⟸   XM_008973652
- Peptide Label: isoform X1
- UniProtKB: A0A2R9AS56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSPPAP00000018597   ⟸   ENSPPAT00000041330
RefSeq Acc Id: ENSPPAP00000018610   ⟸   ENSPPAT00000041343
RefSeq Acc Id: ENSPPAP00000018622   ⟸   ENSPPAT00000041354
Protein Domains
Cadherin   Calsyntenin C-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000032428 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000041330.1 UniProtKB/TrEMBL
  ENSPPAT00000041343.1 UniProtKB/TrEMBL
  ENSPPAT00000041354.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.200 UniProtKB/TrEMBL
  Cadherins UniProtKB/TrEMBL
InterPro Cadherin-like_dom UniProtKB/TrEMBL
  Cadherin-like_sf UniProtKB/TrEMBL
  Calsyntenin UniProtKB/TrEMBL
  CLSTN_C UniProtKB/TrEMBL
  ConA-like_dom_sf UniProtKB/TrEMBL
KEGG Report pps:100989610 UniProtKB/TrEMBL
NCBI Gene CLSTN3 ENTREZGENE
PANTHER CALSYNTENIN-3 UniProtKB/TrEMBL
  PTHR14139 UniProtKB/TrEMBL
Pfam CLSTN_C UniProtKB/TrEMBL
PRINTS CADHERIN UniProtKB/TrEMBL
PROSITE CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP SSF49313 UniProtKB/TrEMBL
  SSF49899 UniProtKB/TrEMBL
UniProt A0A2R9AML8 ENTREZGENE, UniProtKB/TrEMBL
  A0A2R9AMP4_PANPA UniProtKB/TrEMBL
  A0A2R9AS56 ENTREZGENE, UniProtKB/TrEMBL