Basic Information
VIS ID
TVIS30005276
Fusion event
HIV-LINC01140 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
chr1
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
87613156/87147473 (Hg38)
End
87613156/87147473 (Hg38)
Orient
-
Location type
ncRNA_intronic
Fragile sites / regions
FRA1D
Target gene
LINC01140
Nearest miRNA
hsa-mir-101-1/Upstream/789786; hsa-mir-11399/Downstream/6699359;
Nearest TSS
ENST00000473358/Upstream/15418; ENST00000640491/Downstream/65196;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/14641, chr1-CpG: 20/Downstream/3997
Upstream sequence
GCAGACATAAAAGAGTTTCCTATTTCCTCTTAGACAGTGACTATATCATGGGCATCATCTAGTAATGGAgagaggaaaaagaggaagaaataggagagag
Downstream sequence
agagagagaaggtttgaggggaaggggaaggTACATAGCACTTGGTAGCTCCAGTTCCTTTGAGCTAGATGCTCCCCTGGCTGATGCTGCTTCGAAAGCC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate