Dsg2 (desmoglein 2) - Rat Genome Database

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Gene: Dsg2 (desmoglein 2) Rattus norvegicus
Analyze
Symbol: Dsg2
Name: desmoglein 2
RGD ID: 1311143
Description: Predicted to enable calcium ion binding activity and cell adhesion molecule binding activity. Involved in maternal process involved in female pregnancy and response to progesterone. Located in apical plasma membrane and lateral plasma membrane. Human ortholog(s) of this gene implicated in arrhythmogenic right ventricular dysplasia 10 and dilated cardiomyopathy 1BB. Orthologous to human DSG2 (desmoglein 2); PARTICIPATES IN arrhythmogenic right ventricular cardiomyopathy pathway; INTERACTS WITH bis(2-ethylhexyl) phthalate; bisphenol A; cefaloridine.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: desmoglein-2; LOC307562
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21811,846,207 - 11,904,630 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1811,846,183 - 11,904,156 (+)Ensembl
Rnor_6.01815,579,322 - 15,637,720 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1815,579,315 - 15,637,715 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01815,353,348 - 15,411,825 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41812,306,321 - 12,366,719 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11812,366,920 - 12,391,365 (+)NCBI
Celera1811,860,565 - 11,912,367 (+)NCBICelera
Cytogenetic Map18p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butan-1-ol  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
CGP 52608  (ISO)
chloroprene  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
diarsenic trioxide  (ISO)
dibenzo[a,l]pyrene  (ISO)
dibutyl phthalate  (ISO)
glycidol  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
isoprenaline  (ISO)
ivermectin  (ISO)
methapyrilene  (EXP)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nitrofen  (EXP)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenol red  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (ISO)
succimer  (ISO)
sulforaphane  (ISO)
sulfur dioxide  (ISO)
sunitinib  (ISO)
temozolomide  (ISO)
thioacetamide  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. Progesterone treatment and the progress of early pregnancy reduce desmoglein 1&2 staining along the lateral plasma membrane in rat uterine epithelial cells. Preston AM, etal., Acta Histochem. 2004;106(5):345-51.
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Coordinated reassembly of the basement membrane and junctional proteins during corneal epithelial wound healing. Suzuki K, etal., Invest Ophthalmol Vis Sci. 2000 Aug;41(9):2495-500.
Additional References at PubMed
PMID:9864371   PMID:12631242   PMID:14673151   PMID:15775979   PMID:16505173   PMID:17559062   PMID:19199708   PMID:19581412   PMID:20859650   PMID:22274697   PMID:23381804  


Genomics

Comparative Map Data
Dsg2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21811,846,207 - 11,904,630 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1811,846,183 - 11,904,156 (+)Ensembl
Rnor_6.01815,579,322 - 15,637,720 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1815,579,315 - 15,637,715 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01815,353,348 - 15,411,825 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41812,306,321 - 12,366,719 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11812,366,920 - 12,391,365 (+)NCBI
Celera1811,860,565 - 11,912,367 (+)NCBICelera
Cytogenetic Map18p12NCBI
DSG2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381831,498,177 - 31,549,008 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1831,498,177 - 31,549,008 (+)EnsemblGRCh38hg38GRCh38
GRCh371829,078,140 - 29,128,971 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361827,332,170 - 27,380,754 (+)NCBINCBI36hg18NCBI36
Build 341827,332,202 - 27,380,855NCBI
Celera1825,885,149 - 25,935,936 (+)NCBI
Cytogenetic Map18q12.1NCBI
HuRef1825,934,972 - 25,985,760 (+)NCBIHuRef
CHM1_11829,005,330 - 29,056,126 (+)NCBICHM1_1
T2T-CHM13v2.01831,688,704 - 31,739,535 (+)NCBI
Dsg2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391820,691,131 - 20,737,583 (+)NCBIGRCm39mm39
GRCm39 Ensembl1820,691,131 - 20,737,578 (+)Ensembl
GRCm381820,558,074 - 20,604,526 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1820,558,074 - 20,604,521 (+)EnsemblGRCm38mm10GRCm38
MGSCv371820,716,617 - 20,763,027 (+)NCBIGRCm37mm9NCBIm37
MGSCv361820,664,999 - 20,713,857 (+)NCBImm8
MGSCv361820,701,117 - 20,745,819 (+)NCBImm8
Celera1821,057,703 - 21,106,454 (+)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1811.42NCBI
Dsg2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495540218,826,400 - 18,876,188 (+)NCBIChiLan1.0ChiLan1.0
DSG2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11828,313,240 - 28,363,781 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1828,313,223 - 28,363,786 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01824,716,181 - 24,766,837 (+)NCBIMhudiblu_PPA_v0panPan3
DSG2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1757,981,918 - 58,030,197 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl757,982,825 - 58,077,926 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha757,419,009 - 57,467,267 (-)NCBI
ROS_Cfam_1.0757,967,094 - 58,015,339 (-)NCBI
ROS_Cfam_1.0 Ensembl757,967,084 - 58,015,390 (-)Ensembl
UMICH_Zoey_3.1757,643,638 - 57,691,881 (-)NCBI
UNSW_CanFamBas_1.0757,669,703 - 57,717,915 (-)NCBI
UU_Cfam_GSD_1.0757,958,817 - 58,007,069 (-)NCBI
Dsg2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494453,674,706 - 53,721,731 (-)NCBI
SpeTri2.0NW_0049366821,676,301 - 1,725,132 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DSG2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6115,400,243 - 115,454,340 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16115,400,223 - 115,453,763 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26108,027,813 - 108,079,757 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DSG2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11849,174,539 - 49,227,519 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1849,174,409 - 49,227,347 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605023,824,149 - 23,877,098 (-)NCBIVero_WHO_p1.0
Dsg2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247701,313,916 - 1,364,153 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247701,315,021 - 1,363,472 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D10S1559  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21755,981,648 - 55,981,773 (-)MAPPERmRatBN7.2
mRatBN7.262,002,659 - 2,002,784 (+)MAPPERmRatBN7.2
mRatBN7.21755,981,648 - 55,981,773 (+)MAPPERmRatBN7.2
mRatBN7.262,002,659 - 2,002,784 (-)MAPPERmRatBN7.2
mRatBN7.21811,855,180 - 11,855,305 (-)MAPPERmRatBN7.2
mRatBN7.21811,855,180 - 11,855,305 (+)MAPPERmRatBN7.2
Rnor_6.01815,628,636 - 15,628,760NCBIRnor6.0
Rnor_6.01760,887,493 - 60,887,617NCBIRnor6.0
Rnor_5.01815,402,667 - 15,402,791UniSTSRnor5.0
Rnor_5.01762,663,608 - 62,663,732UniSTSRnor5.0
RGSC_v3.4616,600,259 - 16,600,383UniSTSRGSC3.4
RGSC_v3.41812,316,769 - 12,316,893UniSTSRGSC3.4
Celera61,804,181 - 1,804,305UniSTS
Celera1811,869,520 - 11,869,644UniSTS
Cytogenetic Map18p12UniSTS
Cytogenetic Map17q12.1UniSTS
RH143169  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21811,904,484 - 11,904,594 (-)MAPPERmRatBN7.2
Rnor_6.01815,579,356 - 15,579,465NCBIRnor6.0
Rnor_5.01815,353,382 - 15,353,491UniSTSRnor5.0
RGSC_v3.41812,366,576 - 12,366,685UniSTSRGSC3.4
Celera1811,912,224 - 11,912,333UniSTS
RH 3.4 Map18110.2UniSTS
Cytogenetic Map18p12UniSTS
RH136808  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21811,904,465 - 11,904,595 (-)MAPPERmRatBN7.2
Rnor_6.01815,579,355 - 15,579,484NCBIRnor6.0
Rnor_5.01815,353,381 - 15,353,510UniSTSRnor5.0
RGSC_v3.41812,366,557 - 12,366,686UniSTSRGSC3.4
Celera1811,912,205 - 11,912,334UniSTS
RH 3.4 Map18110.3UniSTS
Cytogenetic Map18p12UniSTS
RH134448  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera61,804,572 - 1,804,788UniSTS
Celera1811,869,038 - 11,869,254UniSTS
Cytogenetic Map18p12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor surface area measurement (CMO:0002078)18224947722066430Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat
2299160Iddm35Insulin dependent diabetes mellitus QTL 352.79blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)18420794160377792Rat
2312568Glom21Glomerulus QTL 2120.005kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)18518585840503530Rat
11565454Kidm59Kidney mass QTL 590.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)18679125112205285Rat
12904714Cm131Cardiac mass QTL 1310.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)18679125112205285Rat
12904715Cm132Cardiac mass QTL 1320.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)18679125112205285Rat
12904716Am21Aortic mass QTL 210.005aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)18679125112205285Rat
2301409Cm70Cardiac mass QTL 700.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)18679125112205285Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:126
Count of miRNA genes:103
Interacting mature miRNAs:114
Transcripts:ENSRNOT00000022270
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 40 27 27 27 18 30 3
Low 3 24 14 17 14 46 17 11 8
Below cutoff 6 2 8 8 28 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022270   ⟹   ENSRNOP00000022270
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1811,846,183 - 11,904,156 (+)Ensembl
Rnor_6.0 Ensembl1815,579,315 - 15,637,715 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103330   ⟹   ENSRNOP00000087276
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1811,869,682 - 11,904,156 (+)Ensembl
RefSeq Acc Id: XM_006254474   ⟹   XP_006254536
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21811,846,207 - 11,904,630 (+)NCBI
Rnor_6.01815,579,322 - 15,637,720 (-)NCBI
Rnor_5.01815,353,348 - 15,411,825 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_006254536 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_006254536   ⟸   XM_006254474
- UniProtKB: F1LYX9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000022270   ⟸   ENSRNOT00000022270
RefSeq Acc Id: ENSRNOP00000087276   ⟸   ENSRNOT00000103330
Protein Domains
Cadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LYX9-F1-model_v2 AlphaFold F1LYX9 1-1128 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700661
Promoter ID:EPDNEW_R11181
Type:initiation region
Name:Dsg2_1
Description:desmoglein 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01815,637,622 - 15,637,682EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 15598557 15598558 G A snv ACI/EurMcwi (MCW), LH/MavRrrcAek (2020), FHL/EurMcwi (MCW), SR/JrHsd (MCW), ACI/EurMcwi (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LEW/Crl (RGD), LEW/NCrlBR (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), SHR/NHsd (RGD), SHRSP/Gcrc (RGD), SR/JrHsd (RGD), WKY/NCrl (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), ACI/EurMcwi (2019), ACI/N (2020), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), DA/OlaHsd (2019), FHH/EurMcwi (2019), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEW/Crl (2019), LN/MavRrrcAek (2020), MR/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SR/JrHsd (2020), WKY/NCrl (2019), WKY/N (2020), WN/N (2020), SHR/OlalpcvMcwi (2019), FHH/EurMcwi (MCW)


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 15372588 15372589 G A snv ACI/EurMcwi (MCW), LEC/Tj (KyushuU), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), SR/JrHsd (MCW), WN/N (KNAW), LH/MavRrrc (KNAW), LN/MavRrrc (KNAW), SR/JrHsd (KNAW), ACI/N (KNAW), ACI/EurMcwi (KNAW), DA/BklArbNsi (KNAW), FHH/EurMcwi (KNAW), FHL/EurMcwi (KNAW), GK/Ox (KNAW), LEW/Crl (KNAW), LEW/NCrl (KNAW), SHR/NCrlPrin (KNAW), SHR/NHsd (KNAW), SHR/OlaIpcv (KNAW), SHR/OlaIpcvPrin (KNAW), SHRSP/Gcrc (KNAW), WKY/Gcrc (KNAW), WKY/N (KNAW), WKY/NCrl (KNAW), WKY/NHsd (KNAW), IS/Kyo (KyushuU), HTX/Kyo (KyushuU), RCS/Kyo (KyushuU), IS-Tlk/Kyo (KyushuU), HWY/Slc (KyushuU)
18 15372730 15372731 C T snv DOB/Oda (KyushuU)


Assembly: mRatBN7.2
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
18 11885386 11885387 C T snv ACI/EurMcwi (2019), WN/N (2020), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), DA/OlaHsd (2019), FHH/EurMcwi (2019), GK/FarMcwi (2019), HXB10/IpcvMcwi (2019), HXB20/IpcvMcwi (2020), HXB31/IpcvMcwi (2019), HXB4/IpcvMcwi (2020), LEW/Crl (2019), LH/MavRrrcAek (2020), LN/MavRrrcAek (2020), MR/N (2020), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), WKY/NCrl (2019), WKY/N (2020), ACI/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311143 AgrOrtholog
BioCyc Gene G2FUF-8227 BioCyc
Ensembl Genes ENSRNOG00000016526 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022270 ENTREZGENE
  ENSRNOP00000022270.5 UniProtKB/TrEMBL
  ENSRNOP00000087276.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022270 ENTREZGENE
  ENSRNOT00000022270.7 UniProtKB/TrEMBL
  ENSRNOT00000103330.1 UniProtKB/TrEMBL
Gene3D-CATH 4.10.900.10 UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Catenin_binding_dom UniProtKB/TrEMBL
  Desmo_cadherin UniProtKB/TrEMBL
  Desmoglein UniProtKB/TrEMBL
KEGG Report rno:307562 UniProtKB/TrEMBL
NCBI Gene 307562 ENTREZGENE
Pfam Cadherin UniProtKB/TrEMBL
PhenoGen Dsg2 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
  DESMOCADHERN UniProtKB/TrEMBL
  DESMOGLEIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt A0A8I6AG90_RAT UniProtKB/TrEMBL
  F1LYX9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Dsg2  desmoglein 2   Dsg2_predicted  desmoglein 2 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Dsg2_predicted  desmoglein 2 (predicted)      Symbol and Name status set to approved 70820 APPROVED