Dsg3 (desmoglein 3) - Rat Genome Database

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Gene: Dsg3 (desmoglein 3) Rattus norvegicus
Analyze
Symbol: Dsg3
Name: desmoglein 3
RGD ID: 1592103
Description: Predicted to enable calcium ion binding activity and protein dimerization activity. Predicted to be involved in several processes, including cell-cell junction assembly; negative regulation of p38MAPK cascade; and positive regulation of protein localization. Predicted to be located in cytoplasm; plasma membrane; and tight junction. Predicted to be active in desmosome. Orthologous to human DSG3 (desmoglein 3); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 4,4'-sulfonyldiphenol; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: desmoglein-3; LOC291752; similar to Desmoglein-3 precursor (130 kDa pemphigus vulgaris antigen homolog)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81812,074,321 - 12,105,954 (+)NCBIGRCr8
mRatBN7.21811,799,355 - 11,830,988 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1811,798,900 - 11,830,818 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1812,001,044 - 12,031,914 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01812,788,708 - 12,819,577 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01812,060,341 - 12,091,204 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01815,652,948 - 15,688,605 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1815,650,526 - 15,688,284 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01815,427,642 - 15,458,557 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41812,253,043 - 12,291,911 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1811,815,016 - 11,844,717 (+)NCBICelera
Cytogenetic Map18p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:19056867   PMID:23376485  


Genomics

Comparative Map Data
Dsg3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81812,074,321 - 12,105,954 (+)NCBIGRCr8
mRatBN7.21811,799,355 - 11,830,988 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1811,798,900 - 11,830,818 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1812,001,044 - 12,031,914 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01812,788,708 - 12,819,577 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01812,060,341 - 12,091,204 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01815,652,948 - 15,688,605 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1815,650,526 - 15,688,284 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01815,427,642 - 15,458,557 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41812,253,043 - 12,291,911 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1811,815,016 - 11,844,717 (+)NCBICelera
Cytogenetic Map18p12NCBI
DSG3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381831,447,741 - 31,478,702 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1831,447,741 - 31,478,702 (+)EnsemblGRCh38hg38GRCh38
GRCh371829,027,704 - 29,058,665 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361827,281,730 - 27,312,663 (+)NCBINCBI36Build 36hg18NCBI36
Build 341827,281,755 - 27,310,474NCBI
Celera1825,834,854 - 25,865,787 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
HuRef1825,884,077 - 25,914,980 (+)NCBIHuRef
CHM1_11828,955,016 - 28,985,968 (+)NCBICHM1_1
T2T-CHM13v2.01831,638,285 - 31,669,222 (+)NCBIT2T-CHM13v2.0
Dsg3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391820,643,331 - 20,674,367 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1820,643,331 - 20,680,516 (+)EnsemblGRCm39 Ensembl
GRCm381820,510,274 - 20,541,310 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1820,510,274 - 20,547,459 (+)EnsemblGRCm38mm10GRCm38
MGSCv371820,668,805 - 20,699,811 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361820,653,284 - 20,683,759 (+)NCBIMGSCv36mm8
Celera1821,015,830 - 21,040,888 (+)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1811.39NCBI
Dsg3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540218,790,243 - 18,810,305 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540218,781,511 - 18,811,675 (+)NCBIChiLan1.0ChiLan1.0
DSG3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21748,839,277 - 48,871,301 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11834,531,873 - 34,563,897 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01824,664,969 - 24,695,271 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11828,263,159 - 28,292,163 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1828,262,860 - 28,293,879 (+)Ensemblpanpan1.1panPan2
DSG3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1758,046,563 - 58,077,926 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl757,982,825 - 58,077,926 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha757,483,656 - 57,514,964 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0758,031,694 - 58,063,162 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl758,031,694 - 58,063,580 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1757,708,252 - 57,739,521 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0757,734,286 - 57,765,594 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0758,023,450 - 58,054,798 (-)NCBIUU_Cfam_GSD_1.0
Dsg3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494453,737,216 - 53,765,107 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366821,738,615 - 1,764,216 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
DSG3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6115,351,925 - 115,383,743 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16115,352,005 - 115,383,750 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26107,979,592 - 108,011,225 (+)NCBISscrofa10.2Sscrofa10.2susScr3
DSG3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11849,252,048 - 49,284,238 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1849,254,106 - 49,282,937 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605023,896,371 - 23,927,604 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Dsg3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247701,384,847 - 1,416,833 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Dsg3
504 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:109
Count of miRNA genes:93
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000022584
Prediction methods:Microtar, Miranda, Rnahybrid
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301409Cm70Cardiac mass QTL 700.001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)18679125112205285Rat
12904716Am21Aortic mass QTL 210.005aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)18679125112205285Rat
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
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
12904714Cm131Cardiac mass QTL 1310.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)18679125112205285Rat
2293708Bss46Bone structure and strength QTL 468.80.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)181179151863636873Rat
1641910Colcr3Colorectal carcinoma resistance QTL 35.020.000007intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)18224947722066430Rat
12904715Cm132Cardiac mass QTL 1320.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)18679125112205285Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat
1578667Bss21Bone structure and strength QTL 213.5femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)181179151883218561Rat
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
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
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
1578661Bss20Bone structure and strength QTL 203.7femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)181179151883218561Rat
11565454Kidm59Kidney mass QTL 590.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)18679125112205285Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat

Markers in Region
D18Rat65  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21811,791,518 - 11,791,709 (-)MAPPERmRatBN7.2
Rnor_6.01815,695,872 - 15,696,062NCBIRnor6.0
Rnor_5.01815,466,312 - 15,466,502UniSTSRnor5.0
RGSC_v3.41812,245,097 - 12,245,288RGDRGSC3.4
RGSC_v3.41812,245,098 - 12,245,288UniSTSRGSC3.4
RGSC_v3.11812,271,744 - 12,271,934RGD
Celera1811,807,072 - 11,807,262UniSTS
RH 3.4 Map18109.9RGD
RH 3.4 Map18109.9UniSTS
RH 2.0 Map18759.4RGD
SHRSP x BN Map185.85RGD
Cytogenetic Map18p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 7 39 109 81 80 49 25 49 6 186 83 89 38 58 31

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001191079 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000022584   ⟹   ENSRNOP00000022584
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1811,798,900 - 11,830,818 (+)Ensembl
Rnor_6.0 Ensembl1815,653,611 - 15,688,117 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000091816   ⟹   ENSRNOP00000072153
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1815,650,526 - 15,688,284 (-)Ensembl
RefSeq Acc Id: NM_001191079   ⟹   NP_001178008
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81812,074,321 - 12,105,954 (+)NCBI
mRatBN7.21811,799,355 - 11,830,988 (+)NCBI
Rnor_6.01815,653,611 - 15,688,117 (-)NCBI
Rnor_5.01815,427,642 - 15,458,557 (-)NCBI
Celera1811,815,016 - 11,844,717 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178008 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000022584.5
RefSeq Acc Id: NP_001178008   ⟸   NM_001191079
- Peptide Label: precursor
- UniProtKB: D3ZL74 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000022584   ⟸   ENSRNOT00000022584
Ensembl Acc Id: ENSRNOP00000072153   ⟸   ENSRNOT00000091816
Protein Domains
Cadherin

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K294-F1-model_v2 AlphaFold A0A0G2K294 1-1043 view protein structure

Transcriptome

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

Promoters
RGD ID:13700660
Promoter ID:EPDNEW_R11182
Type:single initiation site
Name:Dsg3_1
Description:desmoglein 3
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_6.01815,688,226 - 15,688,286EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1592103 AgrOrtholog
BioCyc Gene G2FUF-8230 BioCyc
Ensembl Genes ENSRNOG00000016632 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022584.5 UniProtKB/TrEMBL
Gene3D-CATH 4.10.900.10 UniProtKB/TrEMBL
  Cadherins UniProtKB/TrEMBL
InterPro Cadherin UniProtKB/TrEMBL
  Cadherin-domain_protein UniProtKB/TrEMBL
  Cadherin-like UniProtKB/TrEMBL
  Cadherin_CS UniProtKB/TrEMBL
  Catenin_binding_dom UniProtKB/TrEMBL
  Desmo_cadherin UniProtKB/TrEMBL
NCBI Gene 291752 ENTREZGENE
PANTHER DESMOGLEIN FAMILY MEMBER UniProtKB/TrEMBL
  DESMOGLEIN-3 UniProtKB/TrEMBL
Pfam Cadherin UniProtKB/TrEMBL
PhenoGen Dsg3 PhenoGen
PRINTS CADHERIN UniProtKB/TrEMBL
  DESMOCADHERN UniProtKB/TrEMBL
  DESMOGLEIN UniProtKB/TrEMBL
PROSITE CADHERIN_1 UniProtKB/TrEMBL
  CADHERIN_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000016632 RatGTEx
SMART SM00112 UniProtKB/TrEMBL
Superfamily-SCOP Cadherin UniProtKB/TrEMBL
UniProt D3ZL74 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Dsg3  desmoglein 3  LOC291752  similar to Desmoglein-3 precursor (130 kDa pemphigus vulgaris antigen homolog)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC291752  similar to Desmoglein-3 precursor (130 kDa pemphigus vulgaris antigen homolog)      Symbol and Name status set to provisional 70820 PROVISIONAL