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SGCD (sarcoglycan delta)

Identity

Alias_namessarcoglycan, delta (35kDa dystrophin-associated glycoprotein)
Alias_symbol (synonym)DAGD
LGMD2F
CMD1L
Other alias35DAG
SG-delta
SGCDP
SGD
HGNC (Hugo) SGCD
LocusID (NCBI) 6444
Atlas_Id 73179
Location 5q33.3  [Link to chromosome band 5q33]
Location_base_pair Starts at 156326757 and ends at 156767787 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ACVR1 (2q24.1) / SGCD (5q33.3)SGCD (5q33.3) / LCP2 (5q35.1)SGCD (5q33.3) / RFK (9q21.13)
SGCD (5q33.3) / SGCD (5q33.3)SGCD (5q33.3) / ZNF273 (7q11.21)TBCD (17q25.3) / SGCD (5q33.3)

Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 


External links

Nomenclature
HGNC (Hugo)SGCD   10807
LRG (Locus Reference Genomic)LRG_205
Cards
Entrez_Gene (NCBI)SGCD  6444  sarcoglycan delta
Aliases35DAG; CMD1L; DAGD; SG-delta; 
SGCDP; SGD
GeneCards (Weizmann)SGCD
Ensembl hg19 (Hinxton)ENSG00000170624 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000170624 [Gene_View]  chr5:156326757-156767787 [Contig_View]  SGCD [Vega]
ICGC DataPortalENSG00000170624
TCGA cBioPortalSGCD
AceView (NCBI)SGCD
Genatlas (Paris)SGCD
WikiGenes6444
SOURCE (Princeton)SGCD
Genetics Home Reference (NIH)SGCD
Genomic and cartography
GoldenPath hg38 (UCSC)SGCD  -     chr5:156326757-156767787 +  5q33.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SGCD  -     5q33.3   [Description]    (hg19-Feb_2009)
EnsemblSGCD - 5q33.3 [CytoView hg19]  SGCD - 5q33.3 [CytoView hg38]
Mapping of homologs : NCBISGCD [Mapview hg19]  SGCD [Mapview hg38]
OMIM601287   601411   606685   
Gene and transcription
Genbank (Entrez)AA029970 AF010236 AI139498 AK129889 AK130068
RefSeq transcript (Entrez)NM_000337 NM_001128209 NM_172244
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SGCD
Cluster EST : UnigeneHs.644733 [ NCBI ]
CGAP (NCI)Hs.644733
Alternative Splicing GalleryENSG00000170624
Gene ExpressionSGCD [ NCBI-GEO ]   SGCD [ EBI - ARRAY_EXPRESS ]   SGCD [ SEEK ]   SGCD [ MEM ]
Gene Expression Viewer (FireBrowse)SGCD [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)6444
GTEX Portal (Tissue expression)SGCD
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ92629   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ92629  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ92629
Splice isoforms : SwissVarQ92629
PhosPhoSitePlusQ92629
Domains : Interpro (EBI)Sarcoglycan    SGCD   
Domain families : Pfam (Sanger)Sarcoglycan_1 (PF04790)   
Domain families : Pfam (NCBI)pfam04790   
Conserved Domain (NCBI)SGCD
DMDM Disease mutations6444
Blocks (Seattle)SGCD
SuperfamilyQ92629
Human Protein AtlasENSG00000170624
Peptide AtlasQ92629
HPRD03246
IPIIPI00294216   IPI00746318   IPI00373875   IPI00974098   
Protein Interaction databases
DIP (DOE-UCLA)Q92629
IntAct (EBI)Q92629
FunCoupENSG00000170624
BioGRIDSGCD
STRING (EMBL)SGCD
ZODIACSGCD
Ontologies - Pathways
QuickGOQ92629
Ontology : AmiGOcytoplasm  cytoskeleton  plasma membrane  muscle organ development  dystrophin-associated glycoprotein complex  sarcoglycan complex  integral component of membrane  sarcolemma  cardiac muscle tissue development  muscle cell development  heart contraction  membrane organization  
Ontology : EGO-EBIcytoplasm  cytoskeleton  plasma membrane  muscle organ development  dystrophin-associated glycoprotein complex  sarcoglycan complex  integral component of membrane  sarcolemma  cardiac muscle tissue development  muscle cell development  heart contraction  membrane organization  
Pathways : KEGGHypertrophic cardiomyopathy (HCM)    Arrhythmogenic right ventricular cardiomyopathy (ARVC)    Dilated cardiomyopathy    Viral myocarditis   
NDEx NetworkSGCD
Atlas of Cancer Signalling NetworkSGCD
Wikipedia pathwaysSGCD
Orthology - Evolution
OrthoDB6444
GeneTree (enSembl)ENSG00000170624
Phylogenetic Trees/Animal Genes : TreeFamSGCD
HOVERGENQ92629
HOGENOMQ92629
Homologs : HomoloGeneSGCD
Homology/Alignments : Family Browser (UCSC)SGCD
Gene fusions - Rearrangements
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSGCD [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SGCD
dbVarSGCD
ClinVarSGCD
1000_GenomesSGCD 
Exome Variant ServerSGCD
ExAC (Exome Aggregation Consortium)SGCD (select the gene name)
Genetic variants : HAPMAP6444
Genomic Variants (DGV)SGCD [DGVbeta]
DECIPHERSGCD [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSGCD 
Mutations
ICGC Data PortalSGCD 
TCGA Data PortalSGCD 
Broad Tumor PortalSGCD
OASIS PortalSGCD [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSGCD  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDSGCD
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)Leiden Muscular Dystrophy pages
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Zhejiang University Center for Genetic and Genomic Medicine (ZJU-CGGM)
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMutasearch SGCD
DgiDB (Drug Gene Interaction Database)SGCD
DoCM (Curated mutations)SGCD (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SGCD (select a term)
intoGenSGCD
Cancer3DSGCD(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM601287    601411    606685   
Orphanet635    8717   
MedgenSGCD
Genetic Testing Registry SGCD
NextProtQ92629 [Medical]
TSGene6444
GENETestsSGCD
Target ValidationSGCD
Huge Navigator SGCD [HugePedia]
snp3D : Map Gene to Disease6444
BioCentury BCIQSGCD
ClinGenSGCD
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD6444
Chemical/Pharm GKB GenePA35718
Clinical trialSGCD
Miscellaneous
canSAR (ICR)SGCD (select the gene name)
Probes
Litterature
PubMed48 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSGCD
EVEXSGCD
GoPubMedSGCD
iHOPSGCD
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed May 31 15:40:33 CEST 2017

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