Atlas of Genetics and Cytogenetics in Oncology and Haematology

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LARP4 (La ribonucleoprotein domain family member 4)

Identity

Other aliasPP13296
HGNC (Hugo) LARP4
LocusID (NCBI) 113251
Atlas_Id 57369
Location 12q13.12  [Link to chromosome band 12q13]
Location_base_pair Starts at 50400809 and ends at 50480005 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)
ARHGAP32 (11q24.3) / LARP4 (12q13.12)DIP2B (12q13.12) / LARP4 (12q13.12)LARP4 (12q13.12) / DIP2B (12q13.12)
LARP4 (12q13.12) / HPD (12q24.31)LARP4 (12q13.12) / LARP4 (12q13.12)LARP4 (12q13.12) / MUCL1 (12q13.2)
LARP4 (12q13.12) / NFIL3 (9q22.31)LARP4 (12q13.12) / RYR3 (15q14)LARP4 (12q13.12) / TMBIM6 (12q13.12)
RNF41 (12q13.2) / LARP4 (12q13.12)RYR3 (15q14) / LARP4 (12q13.12)TATDN3 (1q32.3) / LARP4 (12q13.12)

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) [ 5 ]
  DIP2B/LARP4 (12q13)
LARP4/MUCL1 (12q13)
t(12;12)(q13;q24) LARP4/HPD
t(12;15)(q13;q14) LARP4/RYR3
t(12;15)(q13;q14) RYR3/LARP4

External links

Nomenclature
HGNC (Hugo)LARP4   24320
Cards
Entrez_Gene (NCBI)LARP4  113251  La ribonucleoprotein domain family member 4
AliasesPP13296
GeneCards (Weizmann)LARP4
Ensembl hg19 (Hinxton)ENSG00000161813 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000161813 [Gene_View]  ENSG00000161813 [Sequence]  chr12:50400809-50480005 [Contig_View]  LARP4 [Vega]
ICGC DataPortalENSG00000161813
TCGA cBioPortalLARP4
AceView (NCBI)LARP4
Genatlas (Paris)LARP4
WikiGenes113251
SOURCE (Princeton)LARP4
Genetics Home Reference (NIH)LARP4
Genomic and cartography
GoldenPath hg38 (UCSC)LARP4  -     chr12:50400809-50480005 +  12q13.12   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)LARP4  -     12q13.12   [Description]    (hg19-Feb_2009)
LARP4 - 12q13.12 [CytoView hg19]  LARP4 - 12q13.12 [CytoView hg38]
Mapping of homologs : NCBILARP4 [Mapview hg19]  LARP4 [Mapview hg38]
Gene and transcription
Genbank (Entrez)AF131755 AF370416 AK055521 AK125113 AK291746
RefSeq transcript (Entrez)NM_001170803 NM_001170804 NM_001170808 NM_001330415 NM_001352304 NM_001352305 NM_001352306 NM_001352307 NM_001352308 NM_001352309 NM_001352310 NM_001352311 NM_001352312 NM_001352313 NM_001352314 NM_001352315 NM_001352316 NM_001352317 NM_001352318 NM_001352319 NM_001352320 NM_001352321 NM_001352322 NM_001352323 NM_001352324 NM_001352325 NM_001352326 NM_052879 NM_199188 NM_199190
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)LARP4
Cluster EST : UnigeneHs.26613 [ NCBI ]
CGAP (NCI)Hs.26613
Alternative Splicing GalleryENSG00000161813
Gene ExpressionLARP4 [ NCBI-GEO ]   LARP4 [ EBI - ARRAY_EXPRESS ]   LARP4 [ SEEK ]   LARP4 [ MEM ]
Gene Expression Viewer (FireBrowse)LARP4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevestigatorExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)113251
GTEX Portal (Tissue expression)LARP4
Human Protein AtlasENSG00000161813-LARP4 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ71RC2   [function]  [subcellular_location]  [family_and_domains]  [pathology_and_biotech]  [ptm_processing]  [expression]  [interaction]
NextProtQ71RC2  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ71RC2
Splice isoforms : SwissVarQ71RC2
PhosPhoSitePlusQ71RC2
Domaine pattern : Prosite (Expaxy)HTH_LA (PS50961)   
Domains : Interpro (EBI)La_HTH    LARP4_RRM    RBD_domain_sf    WH-like_DNA-bd_sf    WH_DNA-bd_sf   
Domain families : Pfam (Sanger)La (PF05383)   
Domain families : Pfam (NCBI)pfam05383   
Domain families : Smart (EMBL)LA (SM00715)  
Conserved Domain (NCBI)LARP4
DMDM Disease mutations113251
Blocks (Seattle)LARP4
PDB (RSDB)2CQK    3PKN   
PDB Europe2CQK    3PKN   
PDB (PDBSum)2CQK    3PKN   
PDB (IMB)2CQK    3PKN   
Structural Biology KnowledgeBase2CQK    3PKN   
SCOP (Structural Classification of Proteins)2CQK    3PKN   
CATH (Classification of proteins structures)2CQK    3PKN   
SuperfamilyQ71RC2
Human Protein Atlas [tissue]ENSG00000161813-LARP4 [tissue]
Peptide AtlasQ71RC2
IPIIPI00395347   IPI00043638   IPI00982060   IPI00797384   IPI00955019   IPI01021443   IPI01021803   IPI01021003   IPI01021108   IPI00788748   IPI00955044   IPI00395837   IPI00418689   IPI00983001   IPI01012507   IPI01020766   
Protein Interaction databases
DIP (DOE-UCLA)Q71RC2
IntAct (EBI)Q71RC2
FunCoupENSG00000161813
BioGRIDLARP4
STRING (EMBL)LARP4
ZODIACLARP4
Ontologies - Pathways
QuickGOQ71RC2
Ontology : AmiGORNA binding  protein binding  cytosol  polysome  translation  cytoskeleton organization  poly(A) binding  cytoplasmic stress granule  membrane  regulation of cell morphogenesis  cytosolic small ribosomal subunit  positive regulation of translation  
Ontology : EGO-EBIRNA binding  protein binding  cytosol  polysome  translation  cytoskeleton organization  poly(A) binding  cytoplasmic stress granule  membrane  regulation of cell morphogenesis  cytosolic small ribosomal subunit  positive regulation of translation  
NDEx NetworkLARP4
Atlas of Cancer Signalling NetworkLARP4
Wikipedia pathwaysLARP4
Orthology - Evolution
OrthoDB113251
GeneTree (enSembl)ENSG00000161813
Phylogenetic Trees/Animal Genes : TreeFamLARP4
HOGENOMQ71RC2
Homologs : HomoloGeneLARP4
Homology/Alignments : Family Browser (UCSC)LARP4
Gene fusions - Rearrangements
Fusion : QuiverLARP4
Polymorphisms : SNP and Copy number variants
NCBI Variation ViewerLARP4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)LARP4
dbVarLARP4
ClinVarLARP4
1000_GenomesLARP4 
Exome Variant ServerLARP4
ExAC (Exome Aggregation Consortium)ENSG00000161813
GNOMAD BrowserENSG00000161813
Varsome BrowserLARP4
Genetic variants : HAPMAP113251
Genomic Variants (DGV)LARP4 [DGVbeta]
DECIPHERLARP4 [patients]   [syndromes]   [variants]   [genes]  
CONAN: Copy Number AnalysisLARP4 
Mutations
ICGC Data PortalLARP4 
TCGA Data PortalLARP4 
Broad Tumor PortalLARP4
OASIS PortalLARP4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICLARP4  [overview]  [genome browser]  [tissue]  [distribution]  
Mutations and Diseases : HGMDLARP4
BioMutasearch LARP4
DgiDB (Drug Gene Interaction Database)LARP4
DoCM (Curated mutations)LARP4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)LARP4 (select a term)
intoGenLARP4
Cancer3DLARP4(select the gene name)
Impact of mutations[PolyPhen2] [Provean] [Buck Institute : MutDB] [Mutation Assessor] [Mutanalyser]
Diseases
OMIM
Orphanet
DisGeNETLARP4
MedgenLARP4
Genetic Testing Registry LARP4
NextProtQ71RC2 [Medical]
TSGene113251
GENETestsLARP4
Target ValidationLARP4
Huge Navigator LARP4 [HugePedia]
snp3D : Map Gene to Disease113251
BioCentury BCIQLARP4
ClinGenLARP4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD113251
Chemical/Pharm GKB GenePA142671566
Clinical trialLARP4
Miscellaneous
canSAR (ICR)LARP4 (select the gene name)
DataMed IndexLARP4
Probes
Litterature
PubMed38 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineLARP4
EVEXLARP4
GoPubMedLARP4
iHOPLARP4
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 : Thu Mar 21 15:52:53 CET 2019
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