Atlas of Genetics and Cytogenetics in Oncology and Haematology

Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   
X Y 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 NA

SCG2 (secretogranin II)

Identity

Alias (NCBI)CHGC
EM66
SN
SgII
HGNC (Hugo) SCG2
HGNC Alias symbCHGC
SgII
SN
HGNC Alias namesecretoneurin
 chromogranin C
LocusID (NCBI) 7857
Atlas_Id 43777
Location 2q36.1  [Link to chromosome band 2q36]
Location_base_pair Starts at 223596940 and ends at 223602361 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2017)		Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
MBNL2 (13q32.1) / SCG2 (2q36.1)

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)SCG2   10575
Cards
Entrez_Gene (NCBI)SCG2    secretogranin II
AliasesCHGC; EM66; SN; SgII
GeneCards (Weizmann)SCG2
Ensembl hg19 (Hinxton)ENSG00000171951 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000171951 [Gene_View]  ENSG00000171951 [Sequence]  chr2:223596940-223602361 [Contig_View]  SCG2 [Vega]
ICGC DataPortalENSG00000171951
TCGA cBioPortalSCG2
AceView (NCBI)SCG2
Genatlas (Paris)SCG2
SOURCE (Princeton)SCG2
Genetics Home Reference (NIH)SCG2
Genomic and cartography
GoldenPath hg38 (UCSC)SCG2  -     chr2:223596940-223602361 -  2q36.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SCG2  -     2q36.1   [Description]    (hg19-Feb_2009)
GoldenPathSCG2 - 2q36.1 [CytoView hg19]  SCG2 - 2q36.1 [CytoView hg38]
ImmunoBaseENSG00000171951
genome Data Viewer NCBISCG2 [Mapview hg19]  
OMIM118930   
Gene and transcription
Genbank (Entrez)AK298828 AK312452 BC022509 DA271642 M25756
RefSeq transcript (Entrez)NM_003469
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SCG2
Alternative Splicing GalleryENSG00000171951
Gene ExpressionSCG2 [ NCBI-GEO ]   SCG2 [ EBI - ARRAY_EXPRESS ]   SCG2 [ SEEK ]   SCG2 [ MEM ]
Gene Expression Viewer (FireBrowse)SCG2 [ Firebrowse - Broad ]
GenevisibleExpression of SCG2 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7857
GTEX Portal (Tissue expression)SCG2
Human Protein AtlasENSG00000171951-SCG2 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP13521   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtP13521  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProP13521
Splice isoforms : SwissVarP13521
PhosPhoSitePlusP13521
Domaine pattern : Prosite (Expaxy)GRANINS_1 (PS00422)   
Domains : Interpro (EBI)Chromogranin_CS    Granin    ScgII   
Domain families : Pfam (Sanger)Granin (PF01271)   
Domain families : Pfam (NCBI)pfam01271   
Conserved Domain (NCBI)SCG2
Blocks (Seattle)SCG2
SuperfamilyP13521
Human Protein Atlas [tissue]ENSG00000171951-SCG2 [tissue]
Peptide AtlasP13521
HPRD06762
IPIIPI00009362   IPI00909898   IPI00916877   IPI00917037   
Protein Interaction databases
DIP (DOE-UCLA)P13521
IntAct (EBI)P13521
BioGRIDSCG2
STRING (EMBL)SCG2
ZODIACSCG2
Ontologies - Pathways
QuickGOP13521
Ontology : AmiGOMAPK cascade  angiogenesis  angiogenesis  negative regulation of endothelial cell proliferation  positive regulation of endothelial cell proliferation  cytokine activity  cytokine activity  protein binding  extracellular space  extracellular space  endoplasmic reticulum lumen  inflammatory response  protein secretion  secretory granule  intracellular signal transduction  chemoattractant activity  chemoattractant activity  endothelial cell migration  post-translational protein modification  cellular protein metabolic process  eosinophil chemotaxis  eosinophil chemotaxis  positive chemotaxis  induction of positive chemotaxis  neuronal dense core vesicle  negative regulation of endothelial cell apoptotic process  negative regulation of extrinsic apoptotic signaling pathway  
Ontology : EGO-EBIMAPK cascade  angiogenesis  angiogenesis  negative regulation of endothelial cell proliferation  positive regulation of endothelial cell proliferation  cytokine activity  cytokine activity  protein binding  extracellular space  extracellular space  endoplasmic reticulum lumen  inflammatory response  protein secretion  secretory granule  intracellular signal transduction  chemoattractant activity  chemoattractant activity  endothelial cell migration  post-translational protein modification  cellular protein metabolic process  eosinophil chemotaxis  eosinophil chemotaxis  positive chemotaxis  induction of positive chemotaxis  neuronal dense core vesicle  negative regulation of endothelial cell apoptotic process  negative regulation of extrinsic apoptotic signaling pathway  
NDEx NetworkSCG2
Atlas of Cancer Signalling NetworkSCG2
Wikipedia pathwaysSCG2
Orthology - Evolution
OrthoDB7857
GeneTree (enSembl)ENSG00000171951
Phylogenetic Trees/Animal Genes : TreeFamSCG2
HOGENOMP13521
Homologs : HomoloGeneSCG2
Homology/Alignments : Family Browser (UCSC)SCG2
Gene fusions - Rearrangements
Fusion : QuiverSCG2
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCG2 [hg38]
dbVarSCG2
ClinVarSCG2
MonarchSCG2
1000_GenomesSCG2 
Exome Variant ServerSCG2
GNOMAD BrowserENSG00000171951
Varsome BrowserSCG2
Genomic Variants (DGV)SCG2 [DGVbeta]
DECIPHERSCG2 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSCG2 
Mutations
ICGC Data PortalSCG2 
TCGA Data PortalSCG2 
Broad Tumor PortalSCG2
OASIS PortalSCG2 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCG2  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSCG2
Mutations and Diseases : HGMDSCG2
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch SCG2
DgiDB (Drug Gene Interaction Database)SCG2
DoCM (Curated mutations)SCG2 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCG2 (select a term)
intoGenSCG2
Cancer3DSCG2(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM118930   
Orphanet
DisGeNETSCG2
MedgenSCG2
Genetic Testing Registry SCG2
NextProtP13521 [Medical]
GENETestsSCG2
Target ValidationSCG2
Huge Navigator SCG2 [HugePedia]
ClinGenSCG2
Clinical trials, drugs, therapy
MyCancerGenomeSCG2
Protein Interactions : CTD
Pharm GKB GenePA34987
PharosP13521
Clinical trialSCG2
Miscellaneous
canSAR (ICR)SCG2 (select the gene name)
HarmonizomeSCG2
DataMed IndexSCG2
Probes
Litterature
PubMed51 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXSCG2
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Fri Jan 1 18:36:19 CET 2021
Home   Genes   Leukemias   Solid Tumors   Cancer-Prone   Deep Insight   Case Reports   Journals  Portal   Teaching   

For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.