Basic Information
VIS ID
TVIS30001892
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
65273346/65505875 (Hg38)
End
65273346/65505875 (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/61318; hsa-let-7a-2/Downstream/130435;
Nearest TSS
ENST00000527297/Upstream/668; ENST00000529178/Downstream/19202;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/7948, chr11-CpG: 52/Downstream/19221
Nearest cancer related gene
MALAT1(OG, No orient, 0)
Upstream sequence
TAATACTTATCCAGTGACTAAAACCAACTTAAACCAGTAAGTGGAGAAATAACATGTTCAAGAACTGTAATGCTGGGTGGGAACATGTAACTTGTAGACT
Downstream sequence
GGAGAAGATAGGCATTTGAGTGGCTGAGAGGGCTTTTGGGTGGGAATGCAAAAATTCTCTGCTAAGACTTTTTCAGGTGAACATAACAGACTTGGCCAAG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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