Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LCT (lactase)

Identity

Other namesLAC
LPH
LPH1
HGNC (Hugo) LCT
LocusID (NCBI) 3938
Location 2q21.3
Location_base_pair Starts at 136545415 and ends at 136594750 bp from pter ( according to hg19-Feb_2009)
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)LCT   6530
Entrez_Gene (NCBI)LCT  3938  lactase
Cards
GeneCards (Weizmann)LCT
Ensembl (Hinxton)ENSG00000115850 [Gene_View]  chr2:136545415-136594750 [Contig_View]  LCT [Vega]
AceView (NCBI)LCT
Genatlas (Paris)LCT
SOURCE (Stanford)NM_002299
Genomic and cartography
GoldenPath (UCSC)LCT  -  2q21.3   chr2:136545415-136594750 -  2q21.3   [Description]    (hg19-Feb_2009)
EnsemblLCT - 2q21.3 [CytoView]
Mapping of homologs : NCBILCT [Mapview]
OMIM223000   223100   603202   
Gene and transcription
Genbank (Entrez)BC156075 BC156950 X07994
RefSeq transcript (SRS)NM_002299
RefSeq transcript (Entrez)NM_002299
RefSeq genomic (SRS)AC_000134 NC_000002 NC_018913 NG_008104 NT_022135 NW_001838859 NW_004078008
RefSeq genomic (Entrez)AC_000134 NC_000002 NC_018913 NG_008104 NT_022135 NW_001838859 NW_004078008
Consensus coding sequences : CCDS (NCBI)LCT
Cluster EST : UnigeneHs.551506 [ SRS ] Hs.551506 [ NCBI ]
CGAP (NCI)Hs.551506
Alternative Splicing : Fast-db (Paris)GSHG0018031
Alternative Splicing GalleryENSG00000115850
Gene ExpressionLCT [ NCBI-GEO ]   LCT [ EBI - ARRAY_EXPRESS ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP09848 (SRS) P09848 (Uniprot)
NextProtP09848
With graphics : InterProP09848
Splice isoforms : SwissVarP09848(Swissvar)
Domaine pattern : Prosite (SRS)GLYCOSYL_HYDROL_F1_1 (PS00572)    GLYCOSYL_HYDROL_F1_2 (PS00653)   
Domaine pattern : Prosite (Expaxy)GLYCOSYL_HYDROL_F1_1 (PS00572)    GLYCOSYL_HYDROL_F1_2 (PS00653)   
Domains : Interpro (SRS)Glyco_hydro_1    Glyco_hydro_1_AS    Glyco_hydro_catalytic_dom    Glycoside_hydrolase_SF   
Domains : Interpro (EBI)Glyco_hydro_1    Glyco_hydro_1_AS    Glyco_hydro_catalytic_dom    Glycoside_hydrolase_SF   
Related proteins : CluSTrP09848
Domain families : Pfam (SRS)Glyco_hydro_1 (PF00232)   
Domain families : Pfam (Sanger)Glyco_hydro_1 (PF00232)   
Domain families : Pfam (NCBI)pfam00232   
DMDM3938
Blocks (Seattle)P09848
Human Protein AtlasENSG00000115850
HPRD04437
IPIIPI00017648   IPI00930743   IPI00916950   
Protein Interaction databases
DIP (DOE-UCLA)P09848
IntAct (EBI)P09848
FunCoupENSG00000115850
REACTOMELCT
Protein Interaction Database3938
BioGRIDLCT
InParanoidP09848
Interologous Interaction database P09848
IntegromeDBLCT
Polymorphism : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)LCT
SNP (GeneSNP Utah)LCT
SNP : HGBaseLCT
Genetic variants : HAPMAPLCT
Somatic Mutations in Cancer : COSMICLCT 
CONAN: Copy Number AnalysisLCT 
Mutations and Diseases : HGMDLCT
OMIM223000    223100    603202   
GENETests223000    223100    603202   
Disease Genetic AssociationLCT
Huge Navigator LCT [HugePedia]  LCT [HugeCancerGEM]
Genomic VariantsLCT  LCT [DGVbeta]
snp3D : Map Gene to Disease3938
General knowledge
Homologs : HomoloGeneLCT
Homology/Alignments : Family Browser (UCSC)LCT
Phylogenetic Trees/Animal Genes : TreeFamLCT
Catalytic activity : Enzyme3.2.1.108 [ Enzyme-Expasy ]   3.2.1.108 [ Enzyme-SRS ]   3.2.1.108 [ IntEnz-EBI ]   3.2.1.108 [ BRENDA ]   3.2.1.108 [ KEGG ]   
Chemical/Protein Interactions : CTD3938
Chemical/Pharm GKB GenePA30315
Clinical trialLCT
Cancer Resource (Charite)ENSG00000115850
Ontology : AmiGOlactase activity  response to hypoxia  plasma membrane  integral to plasma membrane  brush border  carbohydrate metabolic process  response to nutrient  response to sucrose stimulus  response to nickel cation  response to lead ion  membrane  apical plasma membrane  transferase activity  glycosylceramidase activity  response to drug  response to starvation  cation binding  response to estrogen stimulus  polysaccharide digestion  small molecule metabolic process  response to ethanol  
Ontology : EGO-EBIlactase activity  response to hypoxia  plasma membrane  integral to plasma membrane  brush border  carbohydrate metabolic process  response to nutrient  response to sucrose stimulus  response to nickel cation  response to lead ion  membrane  apical plasma membrane  transferase activity  glycosylceramidase activity  response to drug  response to starvation  cation binding  response to estrogen stimulus  polysaccharide digestion  small molecule metabolic process  response to ethanol  
Pathways : KEGGSphingolipid metabolismGlycerolipid metabolismGalactose metabolismGlycosphingolipid biosynthesis - ganglioseriesN-Glycan degradationGlycan structures - degradationGlycosaminoglycan degradation
Other databases
Probes
Litterature
PubMed102 Pubmed reference(s) in Entrez
PubGeneLCT
iHOPLCT
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated01-2013Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Wed May 1 12:42:38 CEST 2013
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