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MALAT1 (metastasis associated lung adenocarcinoma transcript 1 (non-protein coding))

Identity

Alias_symbol (synonym)PRO1073
MALAT-1
NCRNA00047
HCN
NEAT2
LINC00047
mascRNA
Other aliasPRO2853
HGNC (Hugo) MALAT1
LocusID (NCBI) 378938
Atlas_Id 41266
Location 11q13.1  [Link to chromosome band 11q13]
Location_base_pair Starts at 65497738 and ends at 65506512 bp from pter ( according to hg38-Dec_2013)
Fusion genes
(updated 2016)
ACTN4 (19q13.2) / MALAT1 (11q13.1)ALB (4q13.3) / MALAT1 (11q13.1)ALDH7A1 (5q23.2) / MALAT1 (11q13.1)
APP (21q21.3) / MALAT1 (11q13.1)ARHGEF3 (3p14.3) / MALAT1 (11q13.1)ASAP1 (8q24.21) / MALAT1 (11q13.1)
ATF7IP (12p13.1) / MALAT1 (11q13.1)ATP11C (Xq27.1) / MALAT1 (11q13.1)ATP5I (4p16.3) / MALAT1 (11q13.1)
AURKAIP1 (1p36.33) / MALAT1 (11q13.1)BABAM1 (19p13.11) / MALAT1 (11q13.1)CDK14 (7q21.13) / MALAT1 (11q13.1)
CNTRL (9q33.2) / MALAT1 (11q13.1)DDB1 (11q12.2) / MALAT1 (11q13.1)DGKB (7p21.2) / MALAT1 (11q13.1)
DNM2 (19p13.2) / MALAT1 (11q13.1)DNMT1 (19p13.2) / MALAT1 (11q13.1)DUSP27 (1q24.1) / MALAT1 (11q13.1)
EBAG9 (8q23.2) / MALAT1 (11q13.1)ENPP2 (8q24.12) / MALAT1 (11q13.1)EPHA5 (4q13.1) / MALAT1 (11q13.1)
ERGIC1 (5q35.1) / MALAT1 (11q13.1)FAM234B (12p13.1) / MALAT1 (11q13.1)FAM81B (5q15) / MALAT1 (11q13.1)
FGFR4 (5q35.2) / MALAT1 (11q13.1)FKBP15 (9q32) / MALAT1 (11q13.1)FOCAD (9p21.3) / MALAT1 (11q13.1)
GNAI1 (7q21.11) / MALAT1 (11q13.1)GUCY1A2 (11q22.3) / MALAT1 (11q13.1)HMBOX1 (8p21.1) / MALAT1 (11q13.1)
IGF1R (15q26.3) / MALAT1 (11q13.1)IRF3 (19q13.33) / MALAT1 (11q13.1)IVD (15q15.1) / MALAT1 (11q13.1)
KLK3 (19q13.33) / MALAT1 (11q13.1)KMO (1q43) / MALAT1 (11q13.1)LEMD2 (6p21.31) / MALAT1 (11q13.1)
MALAT1 (11q13.1) / ALK (2p23.2)MALAT1 (11q13.1) / ANKRD44 (2q33.1)MALAT1 (11q13.1) / APOB (2p24.1)
MALAT1 (11q13.1) / B3GNT2 (2p15)MALAT1 (11q13.1) / BHLHE40 (3p26.1)MALAT1 (11q13.1) / CCNI (4q21.1)
MALAT1 (11q13.1) / CD59 (11p13)MALAT1 (11q13.1) / CDH2 (18q12.1)MALAT1 (11q13.1) / CEMIP (15q25.1)
MALAT1 (11q13.1) / CLGN (4q31.1)MALAT1 (11q13.1) / CNOT8 (5q33.2)MALAT1 (11q13.1) / COQ10B (2q33.1)
MALAT1 (11q13.1) / CTSZ (20q13.32)MALAT1 (11q13.1) / CYLC2 (9q31.1)MALAT1 (11q13.1) / DBN1 (5q35.3)
MALAT1 (11q13.1) / EIF3J (15q21.1)MALAT1 (11q13.1) / ESR1 (6q25.1)MALAT1 (11q13.1) / FKBP15 (9q32)
MALAT1 (11q13.1) / GAPDH (12p13.31)MALAT1 (11q13.1) / GNA12 (7p22.3)MALAT1 (11q13.1) / HBA2 (16p13.3)
MALAT1 (11q13.1) / HDAC3 (5q31.3)MALAT1 (11q13.1) / HNRNPUL1 (19q13.2)MALAT1 (11q13.1) / HS1BP3 (2p24.1)
MALAT1 (11q13.1) / HSP90AA1 (14q32.31)MALAT1 (11q13.1) / IGF2 (11p15.5)MALAT1 (11q13.1) / IPO13 (1p34.1)
MALAT1 (11q13.1) / LAMB1 (7q31.1)MALAT1 (11q13.1) / LAMP2 (Xq24)MALAT1 (11q13.1) / LDAH (2p24.1)
MALAT1 (11q13.1) / LIFR (5p13.1)MALAT1 (11q13.1) / LRP1B (2q22.1)MALAT1 (11q13.1) / MALAT1 (11q13.1)
MALAT1 (11q13.1) / MAML2 (11q21)MALAT1 (11q13.1) / MAP4K3 (2p22.1)MALAT1 (11q13.1) / MBD3 (19p13.3)
MALAT1 (11q13.1) / MEG3 (14q32.2)MALAT1 (11q13.1) / MGAT4B (5q35.3)MALAT1 (11q13.1) / MIR548H3 (6q16.1)
MALAT1 (11q13.1) / MLH1 (3p22.2)MALAT1 (11q13.1) / MNT (17p13.3)MALAT1 (11q13.1) / MUC7 (4q13.3)
MALAT1 (11q13.1) / MX2 (21q22.3)MALAT1 (11q13.1) / NASP (1p34.1)MALAT1 (11q13.1) / NCOR2 (12q24.31)
MALAT1 (11q13.1) / NEDD4L (18q21.31)MALAT1 (11q13.1) / NSRP1 (17q11.2)MALAT1 (11q13.1) / NUP210 (3p25.1)
MALAT1 (11q13.1) / NUP58 (13q12.13)MALAT1 (11q13.1) / OSBPL6 (2q31.2)MALAT1 (11q13.1) / OST4 (2p23.3)
MALAT1 (11q13.1) / OXR1 (8q23.1)MALAT1 (11q13.1) / PCCA (13q32.3)MALAT1 (11q13.1) / PLCL1 (2q33.1)
MALAT1 (11q13.1) / PLEKHB1 (11q13.4)MALAT1 (11q13.1) / PSPH (7p11.2)MALAT1 (11q13.1) / RAB5B (12q13.2)
MALAT1 (11q13.1) / RAD21L1 (20p13)MALAT1 (11q13.1) / RCVRN (17p13.1)MALAT1 (11q13.1) / RPL13 (16q24.3)
MALAT1 (11q13.1) / RPN1 (3q21.3)MALAT1 (11q13.1) / RPS6 (9p22.1)MALAT1 (11q13.1) / S100A10 (1q21.3)
MALAT1 (11q13.1) / SETDB1 (1q21.3)MALAT1 (11q13.1) / SFXN1 (5q35.2)MALAT1 (11q13.1) / SPG21 (15q22.31)
MALAT1 (11q13.1) / SPRED1 (15q14)MALAT1 (11q13.1) / STK3 (8q22.2)MALAT1 (11q13.1) / TBC1D10A (22q12.2)
MALAT1 (11q13.1) / TFEB (6p21.1)MALAT1 (11q13.1) / TG (8q24.22)MALAT1 (11q13.1) / TMBIM6 (12q13.12)
MALAT1 (11q13.1) / TMC5 (16p12.3)MALAT1 (11q13.1) / TPD52L2 (20q13.33)MALAT1 (11q13.1) / TPM1 (15q22.2)
MALAT1 (11q13.1) / TPP1 (11p15.4)MALAT1 (11q13.1) / TRA2B (3q27.2)MALAT1 (11q13.1) / TRIM2 (4q31.3)
MALAT1 (11q13.1) / TUBB4A (19p13.3)MALAT1 (11q13.1) / U2AF2 (19q13.42)MALAT1 (11q13.1) / USO1 (4q21.1)
MALAT1 (11q13.1) / XPNPEP1 (10q25.1)MALAT1 (11q13.1) / ZAK (2q31.1)MALAT1 (11q13.1) / ZFAND5 (9q21.13)
MALAT1 (11q13.1) / retro-NXF5 ()MAP2K2 (19p13.3) / MALAT1 (11q13.1)MAP3K13 (3q27.2) / MALAT1 (11q13.1)
MDS2 (1p36.11) / MALAT1 (11q13.1)MEMO1 (2p23.1) / MALAT1 (11q13.1)MOGS (2p13.1) / MALAT1 (11q13.1)
MYOT (5q31.2) / MALAT1 (11q13.1)NCKAP5 (2q21.2) / MALAT1 (11q13.1)PARN (16p13.12) / MALAT1 (11q13.1)
PART1 (5q12.1) / MALAT1 (11q13.1)PJA2 (5q21.3) / MALAT1 (11q13.1)PRH1-PRR4 (12p13.2) / MALAT1 (11q13.1)
PRKAG2 (7q36.1) / MALAT1 (11q13.1)PTBP1 (19p13.3) / MALAT1 (11q13.1)PTP4A2 (1p35.2) / MALAT1 (11q13.1)
RAPGEF1 (9q34.13) / MALAT1 (11q13.1)RGL3 (19p13.2) / MALAT1 (11q13.1)RGS5 (1q23.3) / MALAT1 (11q13.1)
RMND5A (2p11.2) / MALAT1 (11q13.1)RPAIN (17p13.2) / MALAT1 (11q13.1)RPL13 (16q24.3) / MALAT1 (11q13.1)
RPS6 (9p22.1) / MALAT1 (11q13.1)RUNX1T1 (8q21.3) / MALAT1 (11q13.1)SCAF11 (12q12) / MALAT1 (11q13.1)
SCN8A (12q13.13) / MALAT1 (11q13.1)SEC24B (4q25) / MALAT1 (11q13.1)SLC9A3R1 (17q25.1) / MALAT1 (11q13.1)
SPG7 (16q24.3) / MALAT1 (11q13.1)TAX1BP1 (7p15.2) / MALAT1 (11q13.1)THRAP3 (1p34.3) / MALAT1 (11q13.1)
TMED10 (14q24.3) / MALAT1 (11q13.1)TMPRSS2 (21q22.3) / MALAT1 (11q13.1)TRIM41 (5q35.3) / MALAT1 (11q13.1)
UIMC1 (5q35.2) / MALAT1 (11q13.1)WDR70 (5p13.2) / MALAT1 (11q13.1)XIST (Xq13.2) / MALAT1 (11q13.1)

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

 


Other Solid tumors implicated (Data extracted from papers in the Atlas) [ 8 ]
  Kidney: Renal cell carcinoma with inv(X)(p11q12) NONO/TFE3
Liver: Mesenchymal hamartoma with t(11;19)(q11;q13) MALAT1/MHLB1
Kidney: Renal cell carcinomas with MiT family translocation
Kidney: Renal cell carcinoma with t(X;17)(p11;q25) ASPSCR1/TFE3
Kidney: Renal cell carcinoma with t(6;11)(p21;q12) MALAT1/TFEB
Kidney: Renal cell carcinoma with t(X;17)(p11;q23) CLTC/TFE3
Kidney: Renal cell carcinoma with t(X;1)(p11;q21) PRCC/TFE3
Kidney: Renal cell carcinoma with t(X;1)(p11;p34) SFPQ/TFE3


External links

Nomenclature
HGNC (Hugo)MALAT1   29665
Cards
Entrez_Gene (NCBI)MALAT1  378938  metastasis associated lung adenocarcinoma transcript 1 (non-protein coding)
AliasesHCN; LINC00047; NCRNA00047; NEAT2; 
PRO2853
GeneCards (Weizmann)MALAT1
Ensembl hg19 (Hinxton)ENSG00000251562 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000251562 [Gene_View]  chr11:65497738-65506512 [Contig_View]  MALAT1 [Vega]
ICGC DataPortalENSG00000251562
TCGA cBioPortalMALAT1
AceView (NCBI)MALAT1
Genatlas (Paris)MALAT1
WikiGenes378938
SOURCE (Princeton)MALAT1
Genetics Home Reference (NIH)MALAT1
Genomic and cartography
GoldenPath hg38 (UCSC)MALAT1  -     chr11:65497738-65506512 +  11q13.1   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)MALAT1  -     11q13.1   [Description]    (hg19-Feb_2009)
EnsemblMALAT1 - 11q13.1 [CytoView hg19]  MALAT1 - 11q13.1 [CytoView hg38]
Mapping of homologs : NCBIMALAT1 [Mapview hg19]  MALAT1 [Mapview hg38]
OMIM607924   
Gene and transcription
Genbank (Entrez)AF132202 AI805768 AK130345 AL050210 BC018448
RefSeq transcript (Entrez)
RefSeq genomic (Entrez)
Consensus coding sequences : CCDS (NCBI)MALAT1
Cluster EST : UnigeneHs.642877 [ NCBI ]
CGAP (NCI)Hs.642877
Alternative Splicing GalleryENSG00000251562
Gene ExpressionMALAT1 [ NCBI-GEO ]   MALAT1 [ EBI - ARRAY_EXPRESS ]   MALAT1 [ SEEK ]   MALAT1 [ MEM ]
Gene Expression Viewer (FireBrowse)MALAT1 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
BioGPS (Tissue expression)378938
GTEX Portal (Tissue expression)MALAT1
Protein : pattern, domain, 3D structure
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)MALAT1
DMDM Disease mutations378938
Blocks (Seattle)MALAT1
Human Protein AtlasENSG00000251562
IPIIPI00006107   IPI00019779   
Protein Interaction databases
FunCoupENSG00000251562
BioGRIDMALAT1
STRING (EMBL)MALAT1
ZODIACMALAT1
Ontologies - Pathways
Huge Navigator MALAT1 [HugePedia]
snp3D : Map Gene to Disease378938
BioCentury BCIQMALAT1
ClinGenMALAT1
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD378938
Chemical/Pharm GKB GenePA134935778
Clinical trialMALAT1
Miscellaneous
canSAR (ICR)MALAT1 (select the gene name)
Probes
Litterature
PubMed129 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineMALAT1
EVEXMALAT1
GoPubMedMALAT1
iHOPMALAT1
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 18 13:58:35 CEST 2017

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