Sgcd (sarcoglycan, delta) - Rat Genome Database

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Gene: Sgcd (sarcoglycan, delta) Rattus norvegicus
Analyze
Symbol: Sgcd
Name: sarcoglycan, delta
RGD ID: 1306638
Description: Predicted to be involved in cardiac muscle tissue development and heart contraction. Predicted to act upstream of or within several processes, including calcium-mediated signaling; cardiac muscle cell contraction; and heart development. Predicted to be located in plasma membrane and sarcoplasmic reticulum. Predicted to be part of sarcoglycan complex. Predicted to be active in sarcolemma. Human ortholog(s) of this gene implicated in autosomal recessive limb-girdle muscular dystrophy type 2F; dilated cardiomyopathy 1L; and muscular dystrophy. Orthologous to human SGCD (sarcoglycan delta); PARTICIPATES IN arrhythmogenic right ventricular cardiomyopathy pathway; dilated cardiomyopathy pathway; hypertrophic cardiomyopathy pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: delta-sarcoglycan; LOC360517; LOC497892; sarcoglycan, delta (dystrophin-associated glycoprotein); sarcoglycan, delta (dystrophin-associated glycoprotein) (predicted); Sgcd_predicted; similar to Delta-sarcoglycan (SG-delta) (35 kDa dystrophin-associated glycoprotein) (35DAG)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81031,847,713 - 32,829,554 (-)NCBIGRCr8
GRCr8 Ensembl1031,781,748 - 32,419,064 (-)EnsemblGRCr8 Ensembl
mRatBN7.21031,346,480 - 32,328,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1031,280,511 - 31,724,840 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1036,077,225 - 36,471,243 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0104,615,625 - 5,009,663 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01031,062,074 - 31,463,752 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01032,062,946 - 32,471,454 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1032,062,946 - 32,471,454 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01031,878,904 - 32,285,036 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41032,084,678 - 32,489,330 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1030,793,915 - 31,190,298 (-)NCBICelera
Cytogenetic Map10q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Disruption of the sarcoglycan-sarcospan complex in vascular smooth muscle: a novel mechanism for cardiomyopathy and muscular dystrophy. Coral-Vazquez R, etal., Cell. 1999 Aug 20;98(4):465-74.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Prevention of cardiomyopathy in delta-sarcoglycan knockout mice after systemic transfer of targeted adeno-associated viral vectors. Goehringer C, etal., Cardiovasc Res. 2009 Jun 1;82(3):404-10. doi: 10.1093/cvr/cvp061. Epub 2009 Feb 13.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Myocardial Contractile Dysfunction Is Present without Histopathology in a Mouse Model of Limb-Girdle Muscular Dystrophy-2F and Is Prevented after Claudin-5 Virotherapy. Milani-Nejad N, etal., Front Physiol. 2016 Dec 6;7:539. doi: 10.3389/fphys.2016.00539. eCollection 2016.
7. Autosomal recessive limb-girdle muscular dystrophy, LGMD2F, is caused by a mutation in the delta-sarcoglycan gene. Nigro V, etal., Nat Genet. 1996 Oct;14(2):195-8.
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Comprehensive gene review and curation RGD comprehensive gene curation
13. S151A d-sarcoglycan mutation causes a mild phenotype of cardiomyopathy in mice. Rutschow D, etal., Eur J Hum Genet. 2014 Jan;22(1):119-25. doi: 10.1038/ejhg.2013.97. Epub 2013 May 22.
Additional References at PubMed
PMID:10678176   PMID:12189167   PMID:16403451   PMID:16524571   PMID:17164264   PMID:17993586   PMID:19931597   PMID:22894000  


Genomics

Comparative Map Data
Sgcd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81031,847,713 - 32,829,554 (-)NCBIGRCr8
GRCr8 Ensembl1031,781,748 - 32,419,064 (-)EnsemblGRCr8 Ensembl
mRatBN7.21031,346,480 - 32,328,364 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1031,280,511 - 31,724,840 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1036,077,225 - 36,471,243 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0104,615,625 - 5,009,663 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01031,062,074 - 31,463,752 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01032,062,946 - 32,471,454 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1032,062,946 - 32,471,454 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01031,878,904 - 32,285,036 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41032,084,678 - 32,489,330 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1030,793,915 - 31,190,298 (-)NCBICelera
Cytogenetic Map10q21NCBI
SGCD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385155,727,832 - 156,767,788 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5155,870,344 - 156,767,788 (+)EnsemblGRCh38hg38GRCh38
GRCh375155,754,174 - 156,194,799 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365155,686,345 - 156,125,639 (+)NCBINCBI36Build 36hg18NCBI36
Build 345155,686,344 - 156,117,646NCBI
Celera5151,779,805 - 152,220,524 (+)NCBICelera
Cytogenetic Map5q33.2-q33.3NCBI
HuRef5150,847,340 - 151,288,441 (+)NCBIHuRef
CHM1_15155,186,188 - 155,627,222 (+)NCBICHM1_1
T2T-CHM13v2.05156,261,684 - 157,286,763 (+)NCBIT2T-CHM13v2.0
Sgcd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391146,861,904 - 47,880,309 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1146,787,080 - 47,879,796 (-)EnsemblGRCm39 Ensembl
GRCm381146,971,077 - 47,989,451 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1146,896,253 - 47,988,969 (-)EnsemblGRCm38mm10GRCm38
MGSCv371146,792,285 - 47,192,804 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361146,822,206 - 47,222,725 (-)NCBIMGSCv36mm8
Celera1151,565,425 - 51,970,242 (-)NCBICelera
Cytogenetic Map11B1.1NCBI
Sgcd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540810,273,223 - 10,819,072 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540810,273,344 - 10,820,108 (+)NCBIChiLan1.0ChiLan1.0
SGCD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24150,925,175 - 151,958,431 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15149,065,868 - 150,104,107 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05151,131,909 - 152,164,077 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15157,119,158 - 158,148,016 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5157,719,540 - 158,139,633 (+)Ensemblpanpan1.1panPan2
SGCD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1453,259,332 - 54,178,228 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl453,263,866 - 53,820,231 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha453,151,553 - 54,062,671 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0453,696,389 - 54,612,269 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl453,701,146 - 54,093,152 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1453,521,774 - 54,443,521 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0453,631,480 - 54,544,178 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0454,146,275 - 55,057,219 (-)NCBIUU_Cfam_GSD_1.0
Sgcd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213107,825,301 - 108,458,847 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365156,283,051 - 6,908,174 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365156,278,631 - 6,908,193 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SGCD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1666,452,178 - 66,887,924 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11666,447,982 - 67,481,709 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21672,423,126 - 72,526,427 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SGCD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12358,095,013 - 59,177,752 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603418,457,325 - 19,501,690 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sgcd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473332,663,025 - 33,080,608 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473332,654,754 - 33,626,227 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sgcd
5170 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:227
Count of miRNA genes:128
Interacting mature miRNAs:156
Transcripts:ENSRNOT00000003224, ENSRNOT00000075449
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103179628176796281Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101577675460776754Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102702353598502431Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)102744378772443787Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10687714251877142Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135730538Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)101993920764939207Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)101803578263035782Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1092219745922197Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)10210370847103708Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101866841963668419Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102183375861843633Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102895035373950353Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102980091064653589Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102744378772443787Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10589381150893811Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102293137391127454Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10589381150893811Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10589381150893811Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101553301273695498Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102466212373695339Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102702353561843633Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10589381150893811Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)102980091091417879Rat
2298495Eae23Experimental allergic encephalomyelitis QTL 2316.93nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)101617552561175525Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)102011061465110614Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138832698Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum immunoglobulin E level (CMO:0002101)102342212132490778Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)102758722696099902Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102907697874076978Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10666111835509383Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101803578263035782Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)102744378772443787Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102937704652699134Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103112911376129113Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)102011061465110614Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102702353599451848Rat

Markers in Region
D10Rat35  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21031,674,688 - 31,674,835 (+)MAPPERmRatBN7.2
Rnor_6.01032,393,479 - 32,393,625NCBIRnor6.0
Rnor_5.01032,206,515 - 32,206,661UniSTSRnor5.0
Celera1031,108,820 - 31,108,955UniSTS
RH 3.4 Map10339.81UniSTS
RH 3.4 Map10339.81RGD
RH 2.0 Map10368.8RGD
SHRSP x BN Map1034.04RGD
Cytogenetic Map10q21UniSTS
AU046953  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21031,748,668 - 31,748,817 (+)MAPPERmRatBN7.2
Rnor_6.01032,466,402 - 32,466,550NCBIRnor6.0
Rnor_5.01032,279,984 - 32,280,132UniSTSRnor5.0
RGSC_v3.41032,484,278 - 32,484,426UniSTSRGSC3.4
Celera1031,185,249 - 31,185,397UniSTS
Cytogenetic Map10q21UniSTS


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
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 11 49 113 86 85 54 24 54 6 212 96 11 93 45 60 31 11 11

Sequence


Ensembl Acc Id: ENSRNOT00000003224   ⟹   ENSRNOP00000003224
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1031,855,390 - 32,419,064 (-)Ensembl
mRatBN7.2 Ensembl1031,354,157 - 31,724,840 (-)Ensembl
Rnor_6.0 Ensembl1032,062,946 - 32,471,454 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000104865   ⟹   ENSRNOP00000083359
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1031,781,748 - 32,226,060 (-)Ensembl
mRatBN7.2 Ensembl1031,280,511 - 31,724,840 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000117010   ⟹   ENSRNOP00000088252
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1031,855,390 - 32,226,060 (-)Ensembl
mRatBN7.2 Ensembl1031,354,157 - 31,724,840 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000133957   ⟹   ENSRNOP00000107338
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1031,855,390 - 32,370,428 (-)Ensembl
RefSeq Acc Id: NM_001109029   ⟹   NP_001102499
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,855,390 - 32,254,940 (-)NCBI
mRatBN7.21031,354,157 - 31,753,718 (-)NCBI
Rnor_6.01032,062,946 - 32,471,454 (-)NCBI
Rnor_5.01031,878,904 - 32,285,036 (-)NCBI
RGSC_v3.41032,084,678 - 32,489,330 (-)RGD
Celera1030,793,915 - 31,190,298 (-)RGD
Sequence:
RefSeq Acc Id: NM_001134826   ⟹   NP_001128298
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,855,390 - 32,254,940 (-)NCBI
mRatBN7.21031,354,157 - 31,753,718 (-)NCBI
Rnor_6.01032,062,946 - 32,471,454 (-)NCBI
Rnor_5.01031,878,904 - 32,285,036 (-)NCBI
RGSC_v3.41032,084,678 - 32,489,330 (-)RGD
Celera1030,793,915 - 31,190,298 (-)RGD
Sequence:
RefSeq Acc Id: XM_039086545   ⟹   XP_038942473
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,847,713 - 32,829,554 (-)NCBI
mRatBN7.21031,346,480 - 32,328,364 (-)NCBI
RefSeq Acc Id: XM_039086546   ⟹   XP_038942474
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,847,713 - 32,829,554 (-)NCBI
mRatBN7.21031,346,480 - 32,328,364 (-)NCBI
RefSeq Acc Id: XM_039086547   ⟹   XP_038942475
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,847,713 - 32,829,553 (-)NCBI
mRatBN7.21031,346,480 - 32,328,363 (-)NCBI
RefSeq Acc Id: XM_063269589   ⟹   XP_063125659
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,915,079 - 32,226,060 (-)NCBI
RefSeq Acc Id: XM_063269591   ⟹   XP_063125661
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,847,713 - 32,255,779 (-)NCBI
RefSeq Acc Id: XM_063269592   ⟹   XP_063125662
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81031,932,681 - 32,226,060 (-)NCBI
RefSeq Acc Id: NP_001102499   ⟸   NM_001109029
- Peptide Label: isoform a
- UniProtKB: A0A8I6A9M3 (UniProtKB/TrEMBL),   A6HDT4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001128298   ⟸   NM_001134826
- Peptide Label: isoform b
- UniProtKB: A6HDT5 (UniProtKB/TrEMBL),   F1LYS7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003224   ⟸   ENSRNOT00000003224
RefSeq Acc Id: XP_038942473   ⟸   XM_039086545
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942474   ⟸   XM_039086546
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942475   ⟸   XM_039086547
- Peptide Label: isoform X2
- UniProtKB: A6HDT5 (UniProtKB/TrEMBL),   F1LYS7 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000088252   ⟸   ENSRNOT00000117010
Ensembl Acc Id: ENSRNOP00000083359   ⟸   ENSRNOT00000104865
RefSeq Acc Id: XP_063125661   ⟸   XM_063269591
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063125659   ⟸   XM_063269589
- Peptide Label: isoform X3
- UniProtKB: A0A8I6GAN9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063125662   ⟸   XM_063269592
- Peptide Label: isoform X5
- UniProtKB: A0A8I6GAN9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000107338   ⟸   ENSRNOT00000133957

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LYS7-F1-model_v2 AlphaFold F1LYS7 1-289 view protein structure

Transcriptome

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

Promoters
RGD ID:13697132
Promoter ID:EPDNEW_R7657
Type:initiation region
Name:Sgcd_1
Description:sarcoglycan, delta
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_6.01032,471,253 - 32,471,313EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306638 AgrOrtholog
BioCyc Gene G2FUF-25354 BioCyc
Ensembl Genes ENSRNOG00000002372 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003224 ENTREZGENE
  ENSRNOT00000003224.9 UniProtKB/TrEMBL
  ENSRNOT00000104865 ENTREZGENE
  ENSRNOT00000104865.1 UniProtKB/TrEMBL
  ENSRNOT00000117010 ENTREZGENE
  ENSRNOT00000117010.1 UniProtKB/TrEMBL
  ENSRNOT00000133957 ENTREZGENE
InterPro Sarcoglycan UniProtKB/TrEMBL
  Sarcoglycan_gamma/delta/zeta UniProtKB/TrEMBL
KEGG Report rno:497892 UniProtKB/TrEMBL
NCBI Gene Sgcd ENTREZGENE
PANTHER PTHR12939 UniProtKB/TrEMBL
  PTHR12939:SF6 UniProtKB/TrEMBL
Pfam Sarcoglycan_1 UniProtKB/TrEMBL
PhenoGen Sgcd PhenoGen
RatGTEx ENSRNOG00000002372 RatGTEx
UniProt A0A8I6A9M3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GAN9 ENTREZGENE, UniProtKB/TrEMBL
  A6HDT4 ENTREZGENE, UniProtKB/TrEMBL
  A6HDT5 ENTREZGENE, UniProtKB/TrEMBL
  F1LYS7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-03-16 Sgcd  sarcoglycan, delta  Sgcd  sarcoglycan, delta (dystrophin-associated glycoprotein)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-05-02 Sgcd  sarcoglycan, delta (dystrophin-associated glycoprotein)  Sgcd_predicted  sarcoglycan, delta (dystrophin-associated glycoprotein) (predicted)  Symbol and Name updated 1299863 APPROVED
2008-05-02 Sgcd_predicted  sarcoglycan, delta (dystrophin-associated glycoprotein) (predicted)  Sgcd  sarcoglycan, delta (dystrophin-associated glycoprotein)  Data merged from RGD:1583740 737654 APPROVED
2008-03-05 Sgcd  sarcoglycan, delta (dystrophin-associated glycoprotein)  LOC497892  similar to Delta-sarcoglycan (SG-delta) (35 kDa dystrophin-associated glycoprotein) (35DAG)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC497892  similar to Delta-sarcoglycan (SG-delta) (35 kDa dystrophin-associated glycoprotein) (35DAG)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Sgcd_predicted  sarcoglycan, delta (dystrophin-associated glycoprotein) (predicted)      Symbol and Name status set to approved 70820 APPROVED