Basic Information
VIS ID
TVIS30010042
Fusion event
HIV-CCNL2 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
p36.33
Reference genome
GRCh37/hg19
Start
1329186/1393806 (Hg38)
End
1329186/1393806 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
CCNL2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-512-5p ; hsa-mir-218-5p ; hsa-mir-548aw ; hsa-mir-222-5p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-8063 ; hsa-mir-3120-3p ; hsa-mir-4668-3p ; hsa-mir-5582-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-12136/Upstream/54098; hsa-mir-101-1/Downstream/1734169;
Nearest TSS
ENST00000473358/Upstream/1090; ENST00000607307/Downstream/4481;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/6262, chr1-CpG: 145/Downstream/4885
Upstream sequence
ATGGGGCTGGTTTCATTCTAGTCTTCAATGCCTTTCCACCAGTGAGGTTGGCCTGTCCTACACGTCTCTGTATCCCAGTTAACAACTCACCAAAACACAA
Downstream sequence
TATGAACATACTTTCAGCAAACAGAGAAGAACACTTCAggccaggcacactggctcatgcctataatcccagcactttgggaggctgaggcgggcagatc
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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