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

LDLRAD3 (low density lipoprotein receptor class A domain containing 3)

Identity

Alias_symbol (synonym)LRAD3
Other alias
HGNC (Hugo) LDLRAD3
LocusID (NCBI) 143458
Atlas_Id 54421
Location 11p13  [Link to chromosome band 11p13]
Location_base_pair Starts at 35943981 and ends at 36232136 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)		IFT74 (9p21.2) / LDLRAD3 (11p13)LDLRAD3 (11p13) / C11orf74 (11p12)LDLRAD3 (11p13) / CD44 (11p13)
LDLRAD3 (11p13) / ELP4 (11p13)LDLRAD3 (11p13) / LDLRAD3 (11p13)LDLRAD3 (11p13) / PRR5L (11p13)
LDLRAD3 (11p13) / TM7SF3 (12p11.23)LDLRAD3 (11p13) / TRIM44 (11p13)IFT74 9p21.2 / LDLRAD3 11p13
LDLRAD3 11p13 / CD44 11p13LDLRAD3 11p13 / ELP4 11p13LDLRAD3 11p13 / TM7SF3 12p11.23
LDLRAD3 11p13 / TRIM44 11p13

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)LDLRAD3   27046
Cards
Entrez_Gene (NCBI)LDLRAD3  143458  low density lipoprotein receptor class A domain containing 3
AliasesLRAD3
GeneCards (Weizmann)LDLRAD3
Ensembl hg19 (Hinxton)ENSG00000179241 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000179241 [Gene_View]  chr11:35943981-36232136 [Contig_View]  LDLRAD3 [Vega]
ICGC DataPortalENSG00000179241
TCGA cBioPortalLDLRAD3
AceView (NCBI)LDLRAD3
Genatlas (Paris)LDLRAD3
WikiGenes143458
SOURCE (Princeton)LDLRAD3
Genetics Home Reference (NIH)LDLRAD3
Genomic and cartography
GoldenPath hg38 (UCSC)LDLRAD3  -     chr11:35943981-36232136 +  11p13   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LDLRAD3  -     11p13   [Description]    (hg19-Feb_2009)
EnsemblLDLRAD3 - 11p13 [CytoView hg19]  LDLRAD3 - 11p13 [CytoView hg38]
Mapping of homologs : NCBILDLRAD3 [Mapview hg19]  LDLRAD3 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AK075546 AK293930 AK299186 BC042754 BC136286
RefSeq transcript (Entrez)NM_001304263 NM_001304264 NM_174902
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LDLRAD3
Cluster EST : UnigeneHs.745134 [ NCBI ]
CGAP (NCI)Hs.745134
Alternative Splicing GalleryENSG00000179241
Gene ExpressionLDLRAD3 [ NCBI-GEO ]   LDLRAD3 [ EBI - ARRAY_EXPRESS ]   LDLRAD3 [ SEEK ]   LDLRAD3 [ MEM ]
Gene Expression Viewer (FireBrowse)LDLRAD3 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)143458
GTEX Portal (Tissue expression)LDLRAD3
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ86YD5   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ86YD5  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ86YD5
Splice isoforms : SwissVarQ86YD5
PhosPhoSitePlusQ86YD5
Domaine pattern : Prosite (Expaxy)LDLRA_1 (PS01209)    LDLRA_2 (PS50068)   
Domains : Interpro (EBI)LDLR_class-A_CS    LDrepeatLR_classA_rpt   
Domain families : Pfam (Sanger)Ldl_recept_a (PF00057)   
Domain families : Pfam (NCBI)pfam00057   
Domain families : Smart (EMBL)LDLa (SM00192)  
Conserved Domain (NCBI)LDLRAD3
DMDM Disease mutations143458
Blocks (Seattle)LDLRAD3
SuperfamilyQ86YD5
Human Protein AtlasENSG00000179241
Peptide AtlasQ86YD5
HPRD14063
IPIIPI00410325   IPI00922042   IPI00922862   IPI00984316   
Protein Interaction databases
DIP (DOE-UCLA)Q86YD5
IntAct (EBI)Q86YD5
FunCoupENSG00000179241
BioGRIDLDLRAD3
STRING (EMBL)LDLRAD3
ZODIACLDLRAD3
Ontologies - Pathways
QuickGOQ86YD5
Ontology : AmiGObeta-amyloid binding  plasma membrane  receptor-mediated endocytosis  integral component of membrane  regulation of protein processing  
Ontology : EGO-EBIbeta-amyloid binding  plasma membrane  receptor-mediated endocytosis  integral component of membrane  regulation of protein processing  
NDEx NetworkLDLRAD3
Atlas of Cancer Signalling NetworkLDLRAD3
Wikipedia pathwaysLDLRAD3
Orthology - Evolution
OrthoDB143458
GeneTree (enSembl)ENSG00000179241
Phylogenetic Trees/Animal Genes : TreeFamLDLRAD3
HOVERGENQ86YD5
HOGENOMQ86YD5
Homologs : HomoloGeneLDLRAD3
Homology/Alignments : Family Browser (UCSC)LDLRAD3
Gene fusions - Rearrangements
Fusion : MitelmanIFT74/LDLRAD3 [9p21.2/11p13]  [t(9;11)(p21;p13)]  
Fusion : MitelmanLDLRAD3/TM7SF3 [11p13/12p11.23]  [t(11;12)(p13;p11)]  
Fusion: TCGAIFT74 9p21.2 LDLRAD3 11p13 BRCA
Fusion: TCGALDLRAD3 11p13 CD44 11p13 BRCA
Fusion: TCGALDLRAD3 11p13 ELP4 11p13 BRCA
Fusion: TCGALDLRAD3 11p13 TM7SF3 12p11.23 LUAD
Fusion: TCGALDLRAD3 11p13 TRIM44 11p13 LUAD SKCM
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLDLRAD3 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LDLRAD3
dbVarLDLRAD3
ClinVarLDLRAD3
1000_GenomesLDLRAD3 
Exome Variant ServerLDLRAD3
ExAC (Exome Aggregation Consortium)LDLRAD3 (select the gene name)
Genetic variants : HAPMAP143458
Genomic Variants (DGV)LDLRAD3 [DGVbeta]
DECIPHERLDLRAD3 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLDLRAD3 
Mutations
ICGC Data PortalLDLRAD3 
TCGA Data PortalLDLRAD3 
Broad Tumor PortalLDLRAD3
OASIS PortalLDLRAD3 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLDLRAD3  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLDLRAD3
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 LDLRAD3
DgiDB (Drug Gene Interaction Database)LDLRAD3
DoCM (Curated mutations)LDLRAD3 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LDLRAD3 (select a term)
intoGenLDLRAD3
Cancer3DLDLRAD3(select the gene name)
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
MedgenLDLRAD3
Genetic Testing Registry LDLRAD3
NextProtQ86YD5 [Medical]
TSGene143458
GENETestsLDLRAD3
Target ValidationLDLRAD3
Huge Navigator LDLRAD3 [HugePedia]
snp3D : Map Gene to Disease143458
BioCentury BCIQLDLRAD3
ClinGenLDLRAD3
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD143458
Chemical/Pharm GKB GenePA142671556
Clinical trialLDLRAD3
Miscellaneous
canSAR (ICR)LDLRAD3 (select the gene name)
Probes
Litterature
PubMed8 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLDLRAD3
EVEXLDLRAD3
GoPubMedLDLRAD3
iHOPLDLRAD3
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 : Wed Jun 7 12:40:21 CEST 2017
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.