Basic Information
VIS ID
TVIS30009704
Fusion event
HIV-CDKN2B-AS1 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
chr9
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
22062368/22062369 (Hg38)
End
22062368/22062369 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA9C
Target gene
CDKN2B-AS1
Nearest miRNA
hsa-mir-101-2/Upstream/550184; hsa-let-7a-1/Downstream/6801257;
Nearest TSS
ENST00000422679/Upstream/15618; ENST00000645223/Downstream/49702;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/52897, chr9-CpG: 21/Downstream/92109
Upstream sequence
GTTTAGCTTACAGAAAGTTAGTAGTTTTCAAAAGGGTCTTTATGTATACAATTGAAGATACTACATTCTTGAAAAGGAAATCTTTACAGCATACAGGTCC
Downstream sequence
CTGGCACTAATACCTCATTTCTGGGCACAGCTTGATATGGAGGTATAGTTTGTGTTTTATCTGAGGAAAATTTAGGTTGGTGTTATGTTTTGGGCTAGCT
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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