Atlas of Genetics and Cytogenetics in Oncology and Haematology

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SCGB1D1 (secretoglobin family 1D member 1)

Identity

Alias_symbol (synonym)LPHA
LIPA
MGC71958
Other aliasLPNA
HGNC (Hugo) SCGB1D1
LocusID (NCBI) 10648
Atlas_Id 42210
Location 11q12.3  [Link to chromosome band 11q12]
Location_base_pair Starts at 62190238 and ends at 62193537 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)
AAMDC (11q14.1) / SCGB1D1 (11q12.3)TMEM179B (11q12.3) / SCGB1D1 (11q12.3)C11orf67 SCGB1D1 11q12.3
TMEM179B 11q12.3 / SCGB1D1 11q12.3

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

 

Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 2 ]
  TMEM179B/SCGB1D1 (11q12)
t(11;11)(q12;q14) AAMDC/SCGB1D1

External links

Nomenclature
HGNC (Hugo)SCGB1D1   18395
Cards
Entrez_Gene (NCBI)SCGB1D1  10648  secretoglobin family 1D member 1
AliasesLIPA; LPHA; LPNA
GeneCards (Weizmann)SCGB1D1
Ensembl hg19 (Hinxton)ENSG00000168515 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000168515 [Gene_View]  ENSG00000168515 [Sequence]  chr11:62190238-62193537 [Contig_View]  SCGB1D1 [Vega]
ICGC DataPortalENSG00000168515
TCGA cBioPortalSCGB1D1
AceView (NCBI)SCGB1D1
Genatlas (Paris)SCGB1D1
WikiGenes10648
SOURCE (Princeton)SCGB1D1
Genetics Home Reference (NIH)SCGB1D1
Genomic and cartography
GoldenPath hg38 (UCSC)SCGB1D1  -     chr11:62190238-62193537 +  11q12.3   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)SCGB1D1  -     11q12.3   [Description]    (hg19-Feb_2009)
GoldenPathSCGB1D1 - 11q12.3 [CytoView hg19]  SCGB1D1 - 11q12.3 [CytoView hg38]
ImmunoBaseENSG00000168515
Mapping of homologs : NCBISCGB1D1 [Mapview hg19]  SCGB1D1 [Mapview hg38]
OMIM615060   
Gene and transcription
Genbank (Entrez)AJ224171 BC062693 BC069170 BC069289
RefSeq transcript (Entrez)NM_006552
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)SCGB1D1
Cluster EST : UnigeneHs.202686 [ NCBI ]
CGAP (NCI)Hs.202686
Alternative Splicing GalleryENSG00000168515
Gene ExpressionSCGB1D1 [ NCBI-GEO ]   SCGB1D1 [ EBI - ARRAY_EXPRESS ]   SCGB1D1 [ SEEK ]   SCGB1D1 [ MEM ]
Gene Expression Viewer (FireBrowse)SCGB1D1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)10648
GTEX Portal (Tissue expression)SCGB1D1
Human Protein AtlasENSG00000168515-SCGB1D1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO95968   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO95968  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO95968
Splice isoforms : SwissVarO95968
PhosPhoSitePlusO95968
Domaine pattern : Prosite (Expaxy)SCGB (PS51311)   
Domains : Interpro (EBI)Secretoglobin    Secretoglobin_sf   
Domain families : Pfam (Sanger)Uteroglobin (PF01099)   
Domain families : Pfam (NCBI)pfam01099   
Conserved Domain (NCBI)SCGB1D1
DMDM Disease mutations10648
Blocks (Seattle)SCGB1D1
SuperfamilyO95968
Human Protein Atlas [tissue]ENSG00000168515-SCGB1D1 [tissue]
Peptide AtlasO95968
HPRD18025
IPIIPI00001468   
Protein Interaction databases
DIP (DOE-UCLA)O95968
IntAct (EBI)O95968
FunCoupENSG00000168515
BioGRIDSCGB1D1
STRING (EMBL)SCGB1D1
ZODIACSCGB1D1
Ontologies - Pathways
QuickGOO95968
Ontology : AmiGOextracellular space  extracellular space  extracellular space  protein heterodimerization activity  
Ontology : EGO-EBIextracellular space  extracellular space  extracellular space  protein heterodimerization activity  
NDEx NetworkSCGB1D1
Atlas of Cancer Signalling NetworkSCGB1D1
Wikipedia pathwaysSCGB1D1
Orthology - Evolution
OrthoDB10648
GeneTree (enSembl)ENSG00000168515
Phylogenetic Trees/Animal Genes : TreeFamSCGB1D1
HOGENOMO95968
Homologs : HomoloGeneSCGB1D1
Homology/Alignments : Family Browser (UCSC)SCGB1D1
Gene fusions - Rearrangements
Fusion : MitelmanAAMDC/SCGB1D1 [11q14.1/11q12.3]  [t(11;11)(q12;q14)]  
Fusion : MitelmanTMEM179B/SCGB1D1 [11q12.3/11q12.3]  [t(11;11)(q12;q12)]  
Fusion PortalC11orf67 SCGB1D1 11q12.3 HNSC
Fusion PortalTMEM179B 11q12.3 SCGB1D1 11q12.3 OV
Fusion : QuiverSCGB1D1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerSCGB1D1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)SCGB1D1
dbVarSCGB1D1
ClinVarSCGB1D1
1000_GenomesSCGB1D1 
Exome Variant ServerSCGB1D1
ExAC (Exome Aggregation Consortium)ENSG00000168515
GNOMAD BrowserENSG00000168515
Varsome BrowserSCGB1D1
Genetic variants : HAPMAP10648
Genomic Variants (DGV)SCGB1D1 [DGVbeta]
DECIPHERSCGB1D1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisSCGB1D1 
Mutations
ICGC Data PortalSCGB1D1 
TCGA Data PortalSCGB1D1 
Broad Tumor PortalSCGB1D1
OASIS PortalSCGB1D1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICSCGB1D1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DSCGB1D1
Mutations and Diseases : HGMDSCGB1D1
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 SCGB1D1
DgiDB (Drug Gene Interaction Database)SCGB1D1
DoCM (Curated mutations)SCGB1D1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)SCGB1D1 (select a term)
intoGenSCGB1D1
Cancer3DSCGB1D1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM615060   
Orphanet
DisGeNETSCGB1D1
MedgenSCGB1D1
Genetic Testing Registry SCGB1D1
NextProtO95968 [Medical]
TSGene10648
GENETestsSCGB1D1
Target ValidationSCGB1D1
Huge Navigator SCGB1D1 [HugePedia]
snp3D : Map Gene to Disease10648
BioCentury BCIQSCGB1D1
ClinGenSCGB1D1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD10648
Chemical/Pharm GKB GenePA34990
Clinical trialSCGB1D1
Miscellaneous
canSAR (ICR)SCGB1D1 (select the gene name)
DataMed IndexSCGB1D1
Probes
Litterature
PubMed11 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineSCGB1D1
EVEXSCGB1D1
GoPubMedSCGB1D1
iHOPSCGB1D1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Wed Nov 13 18:06:20 CET 2019
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