Basic Information
VIS ID
TVIS30001889
Fusion event
HIV-MALAT1 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
65270241/65502770 (Hg38)
End
65270241/65502770 (Hg38)
Orient
-
Location type
ncRNA_exonic
Fragile sites / regions
FRA11H
Target gene
MALAT1
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-200c-3p ; hsa-mir-22-3p ; hsa-mir-23c ; hsa-mir-202-3p ; hsa-mir-1297 ; hsa-mir-204-5p ; hsa-mir-375 ; hsa-mir-146b-5p ; hsa-mir-200a-3p ; hsa-mir-200b-3p ; hsa-mir-141-3p ; hsa-mir-429
Nearest miRNA
hsa-mir-10392/Upstream/58213; hsa-let-7a-2/Downstream/133540;
Nearest TSS
ENST00000527297/Upstream/41; ENST00000620465/Downstream/909;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/4843, chr11-CpG: 52/Downstream/22326
Nearest cancer related gene
MALAT1(OG, No orient, 0)
Upstream sequence
AGCCTGGCAGTATGATGGCCTAGATGCAGAGAAAACAGCTCCTTGGTGAATTGATAAGTAAAGGCAGAAAAGATTATATGTCATACCTCCATTGGGGAAT
Downstream sequence
AAGCATAACCCTGAGATTCTTACTACTGATGAGAACATTATCTGCATATGCCAAAAAATTTTAAGCAAATGAAAGCTACCAATTTAAAGTTACGGAATCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate