Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LST1 (leukocyte specific transcript 1)

Identity

Alias (NCBI)B144
D6S49E
LST-1
HGNC (Hugo) LST1
HGNC Alias symbLST-1
B144
D6S49E
LocusID (NCBI) 7940
Atlas_Id 43983
Location 6p21.33  [Link to chromosome band 6p21]
Location_base_pair Starts at 31587200 and ends at 31588909 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)
LST1 (6p21.33) / SUSD6 (14q24.1)

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)LST1   14189
Cards
Entrez_Gene (NCBI)LST1  7940  leukocyte specific transcript 1
AliasesB144; D6S49E; LST-1
GeneCards (Weizmann)LST1
Ensembl hg19 (Hinxton)ENSG00000204482 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000204482 [Gene_View]  ENSG00000204482 [Sequence]  chr6:31587200-31588909 [Contig_View]  LST1 [Vega]
ICGC DataPortalENSG00000204482
TCGA cBioPortalLST1
AceView (NCBI)LST1
Genatlas (Paris)LST1
WikiGenes7940
SOURCE (Princeton)LST1
Genetics Home Reference (NIH)LST1
Genomic and cartography
GoldenPath hg38 (UCSC)LST1  -     chr6:31587200-31588909 +  6p21.33   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LST1  -     6p21.33   [Description]    (hg19-Feb_2009)
GoldenPathLST1 - 6p21.33 [CytoView hg19]  LST1 - 6p21.33 [CytoView hg38]
ImmunoBaseENSG00000204482
genome Data Viewer NCBILST1 [Mapview hg19]  
OMIM109170   
Gene and transcription
Genbank (Entrez)AF000424 AF000425 AF000426 AI091696 AJ705986
RefSeq transcript (Entrez)NM_001166538 NM_007161 NM_205837 NM_205838 NM_205839 NM_205840
RefSeq genomic (Entrez)NC_000006 NG_030378 NT_113891 NT_167244 NT_167245 NT_167246 NT_167247 NT_167248 NT_167249
Consensus coding sequences : CCDS (NCBI)LST1
Alternative Splicing GalleryENSG00000204482
Gene ExpressionLST1 [ NCBI-GEO ]   LST1 [ EBI - ARRAY_EXPRESS ]   LST1 [ SEEK ]   LST1 [ MEM ]
Gene Expression Viewer (FireBrowse)LST1 [ Firebrowse - Broad ]
GenevisibleExpression of LST1 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)7940
GTEX Portal (Tissue expression)LST1
Human Protein AtlasENSG00000204482-LST1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtO00453   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtO00453  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProO00453
Splice isoforms : SwissVarO00453
PhosPhoSitePlusO00453
Domains : Interpro (EBI)Leukocyte-sp_tscrpt_1_LST1   
Domain families : Pfam (Sanger)LST1 (PF05083)   
Domain families : Pfam (NCBI)pfam05083   
Conserved Domain (NCBI)LST1
DMDM Disease mutations7940
Blocks (Seattle)LST1
SuperfamilyO00453
Human Protein Atlas [tissue]ENSG00000204482-LST1 [tissue]
Peptide AtlasO00453
HPRD00172
IPIIPI00847819   IPI00413534   IPI00334522   IPI00007053   IPI00337624   IPI00007055   IPI00007048   IPI00007085   IPI00789968   IPI00647136   IPI00646815   IPI00644094   IPI00953670   IPI00827542   IPI00477709   IPI00790275   IPI00793533   IPI01013318   IPI01014874   IPI00893846   IPI00946584   IPI00947092   
Protein Interaction databases
DIP (DOE-UCLA)O00453
IntAct (EBI)O00453
FunCoupENSG00000204482
BioGRIDLST1
STRING (EMBL)LST1
ZODIACLST1
Ontologies - Pathways
QuickGOO00453
Ontology : AmiGOGolgi membrane  cell morphogenesis  cytoplasm  Golgi apparatus  immune response  regulation of cell shape  anatomical structure morphogenesis  integral component of membrane  integral component of membrane  dendrite development  dendrite development  negative regulation of lymphocyte proliferation  
Ontology : EGO-EBIGolgi membrane  cell morphogenesis  cytoplasm  Golgi apparatus  immune response  regulation of cell shape  anatomical structure morphogenesis  integral component of membrane  integral component of membrane  dendrite development  dendrite development  negative regulation of lymphocyte proliferation  
NDEx NetworkLST1
Atlas of Cancer Signalling NetworkLST1
Wikipedia pathwaysLST1
Orthology - Evolution
OrthoDB7940
GeneTree (enSembl)ENSG00000204482
Phylogenetic Trees/Animal Genes : TreeFamLST1
HOGENOMO00453
Homologs : HomoloGeneLST1
Homology/Alignments : Family Browser (UCSC)LST1
Gene fusions - Rearrangements
Fusion : QuiverLST1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLST1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LST1
dbVarLST1
ClinVarLST1
MonarchLST1
1000_GenomesLST1 
Exome Variant ServerLST1
GNOMAD BrowserENSG00000204482
Varsome BrowserLST1
Genetic variants : HAPMAP7940
Genomic Variants (DGV)LST1 [DGVbeta]
DECIPHERLST1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLST1 
Mutations
ICGC Data PortalLST1 
TCGA Data PortalLST1 
Broad Tumor PortalLST1
OASIS PortalLST1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLST1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLST1
Mutations and Diseases : HGMDLST1
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 LST1
DgiDB (Drug Gene Interaction Database)LST1
DoCM (Curated mutations)LST1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LST1 (select a term)
intoGenLST1
Cancer3DLST1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM109170   
Orphanet
DisGeNETLST1
MedgenLST1
Genetic Testing Registry LST1
NextProtO00453 [Medical]
TSGene7940
GENETestsLST1
Target ValidationLST1
Huge Navigator LST1 [HugePedia]
snp3D : Map Gene to Disease7940
BioCentury BCIQLST1
ClinGenLST1
Clinical trials, drugs, therapy
Protein Interactions : CTD7940
Pharm GKB GenePA37856
Clinical trialLST1
Miscellaneous
canSAR (ICR)LST1 (select the gene name)
HarmonizomeLST1
DataMed IndexLST1
Probes
Litterature
PubMed43 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLST1
EVEXLST1
GoPubMedLST1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Mon Sep 14 14:18:58 CEST 2020
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