Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LETMD1 (LETM1 domain containing 1)

Identity

Alias_symbol (synonym)HCCR1
HCCR
HCCR-2
HCCR-1
HCCR2
SLC55A3
Other alias1110019O13Rik
HCRR-2
HGNC (Hugo) LETMD1
LocusID (NCBI) 25875
Atlas_Id 40797
Location 12q13.12  [Link to chromosome band 12q13]
Location_base_pair Starts at 51048299 and ends at 51060424 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)

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)LETMD1   24241
Cards
Entrez_Gene (NCBI)LETMD1  25875  LETM1 domain containing 1
Aliases1110019O13Rik; HCCR; HCCR-1; HCCR-2; 
HCCR1; HCCR2; HCRR-2; SLC55A3
GeneCards (Weizmann)LETMD1
Ensembl hg19 (Hinxton)ENSG00000050426 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000050426 [Gene_View]  ENSG00000050426 [Sequence]  chr12:51048299-51060424 [Contig_View]  LETMD1 [Vega]
ICGC DataPortalENSG00000050426
TCGA cBioPortalLETMD1
AceView (NCBI)LETMD1
Genatlas (Paris)LETMD1
WikiGenes25875
SOURCE (Princeton)LETMD1
Genetics Home Reference (NIH)LETMD1
Genomic and cartography
GoldenPath hg38 (UCSC)LETMD1  -     chr12:51048299-51060424 +  12q13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LETMD1  -     12q13.12   [Description]    (hg19-Feb_2009)
GoldenPathLETMD1 - 12q13.12 [CytoView hg19]  LETMD1 - 12q13.12 [CytoView hg38]
ImmunoBaseENSG00000050426
Mapping of homologs : NCBILETMD1 [Mapview hg19]  LETMD1 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF195651 AF315598 AF329277 AI313513 AK000639
RefSeq transcript (Entrez)NM_001024668 NM_001024669 NM_001024670 NM_001024671 NM_001243689 NM_001300765 NM_001351312 NM_001351313 NM_001351315 NM_001351316 NM_001351317 NM_001351319 NM_001351320 NM_001351321 NM_001351322 NM_001351323 NM_001351324 NM_001351325 NM_001351326 NM_001351327 NM_001351328 NM_001351330 NM_001351332 NM_001351333 NM_001351334 NM_001351335 NM_001351336 NM_001351337 NM_015416
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LETMD1
Cluster EST : UnigeneHs.655272 [ NCBI ]
CGAP (NCI)Hs.655272
Alternative Splicing GalleryENSG00000050426
Gene ExpressionLETMD1 [ NCBI-GEO ]   LETMD1 [ EBI - ARRAY_EXPRESS ]   LETMD1 [ SEEK ]   LETMD1 [ MEM ]
Gene Expression Viewer (FireBrowse)LETMD1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)25875
GTEX Portal (Tissue expression)LETMD1
Human Protein AtlasENSG00000050426-LETMD1 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ6P1Q0   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ6P1Q0  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ6P1Q0
Splice isoforms : SwissVarQ6P1Q0
PhosPhoSitePlusQ6P1Q0
Domaine pattern : Prosite (Expaxy)LETM1_RBD (PS51758)   
Domains : Interpro (EBI)LETM1    LETM1_RBD   
Domain families : Pfam (Sanger)LETM1 (PF07766)   
Domain families : Pfam (NCBI)pfam07766   
Conserved Domain (NCBI)LETMD1
DMDM Disease mutations25875
Blocks (Seattle)LETMD1
SuperfamilyQ6P1Q0
Human Protein Atlas [tissue]ENSG00000050426-LETMD1 [tissue]
Peptide AtlasQ6P1Q0
HPRD09978
IPIIPI00642245   IPI00607602   IPI00450392   IPI00791609   IPI00789011   IPI00450393   IPI00921974   IPI00922941   IPI01021866   IPI01022298   IPI01022607   IPI01021281   IPI01021428   IPI01021718   IPI01020881   IPI01021048   IPI01021153   IPI01021292   IPI01022740   IPI01022893   IPI01023036   IPI01020749   IPI01022316   IPI01023072   IPI01021734   IPI01021908   IPI01025715   
Protein Interaction databases
DIP (DOE-UCLA)Q6P1Q0
IntAct (EBI)Q6P1Q0
FunCoupENSG00000050426
BioGRIDLETMD1
STRING (EMBL)LETMD1
ZODIACLETMD1
Ontologies - Pathways
QuickGOQ6P1Q0
Ontology : AmiGOprotein binding  nucleoplasm  mitochondrion  mitochondrial outer membrane  mitochondrial inner membrane  integral component of membrane  ribosome binding  
Ontology : EGO-EBIprotein binding  nucleoplasm  mitochondrion  mitochondrial outer membrane  mitochondrial inner membrane  integral component of membrane  ribosome binding  
NDEx NetworkLETMD1
Atlas of Cancer Signalling NetworkLETMD1
Wikipedia pathwaysLETMD1
Orthology - Evolution
OrthoDB25875
GeneTree (enSembl)ENSG00000050426
Phylogenetic Trees/Animal Genes : TreeFamLETMD1
HOGENOMQ6P1Q0
Homologs : HomoloGeneLETMD1
Homology/Alignments : Family Browser (UCSC)LETMD1
Gene fusions - Rearrangements
Fusion : QuiverLETMD1
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLETMD1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LETMD1
dbVarLETMD1
ClinVarLETMD1
1000_GenomesLETMD1 
Exome Variant ServerLETMD1
ExAC (Exome Aggregation Consortium)ENSG00000050426
GNOMAD BrowserENSG00000050426
Varsome BrowserLETMD1
Genetic variants : HAPMAP25875
Genomic Variants (DGV)LETMD1 [DGVbeta]
DECIPHERLETMD1 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLETMD1 
Mutations
ICGC Data PortalLETMD1 
TCGA Data PortalLETMD1 
Broad Tumor PortalLETMD1
OASIS PortalLETMD1 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLETMD1  [overview]  [genome browser]  [tissue]  [distribution]  
Somatic Mutations in Cancer : COSMIC3DLETMD1
Mutations and Diseases : HGMDLETMD1
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
LOVD (Leiden Open Variation Database)MSeqDR-LSDB Mitochondrial Disease Locus Specific Database
BioMutasearch LETMD1
DgiDB (Drug Gene Interaction Database)LETMD1
DoCM (Curated mutations)LETMD1 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LETMD1 (select a term)
intoGenLETMD1
Cancer3DLETMD1(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETLETMD1
MedgenLETMD1
Genetic Testing Registry LETMD1
NextProtQ6P1Q0 [Medical]
TSGene25875
GENETestsLETMD1
Target ValidationLETMD1
Huge Navigator LETMD1 [HugePedia]
snp3D : Map Gene to Disease25875
BioCentury BCIQLETMD1
ClinGenLETMD1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD25875
Chemical/Pharm GKB GenePA134914870
Clinical trialLETMD1
Miscellaneous
canSAR (ICR)LETMD1 (select the gene name)
DataMed IndexLETMD1
Probes
Litterature
PubMed36 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLETMD1
EVEXLETMD1
GoPubMedLETMD1
iHOPLETMD1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

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indexed on : Mon Jan 27 14:49:18 CET 2020
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