Basic Information
VIS ID
TVIS30000410
Fusion event
HIV-CCDC18 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr1
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
93676532/93210975 (Hg38)
End
93676532/93210975 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1D
Target gene
CCDC18
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-136-5p ; hsa-mir-3121-5p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-4639-3p ; hsa-mir-501-5p ; hsa-mir-200a-3p ; hsa-mir-141-3p ; hsa-mir-3161 ; hsa-mir-6844 ; hsa-mir-103a-2-5p ; hsa-mir-100-3p
Nearest miRNA
hsa-mir-101-1/Upstream/6853288; hsa-mir-11399/Downstream/635857;
Nearest TSS
ENST00000473358/Upstream/5420; ENST00000421014/Downstream/10690;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/30061, chr1-CpG: 66/Downstream/134686
Upstream sequence
CCGTTGCATTGGCTGCTGTGAGGCAAATAAATTGGTGATTTCGGAATTGAGGTACAATTTTCAGATTCTGCAGTTATAGCAAATAGAATGTTTTTTATTG
Downstream sequence
GTAATTAAGACCCTTAATTggccgggcatggtggctcatgcctgtaatcccaacactttgggaggctgaggcaggcggatcacgaggtcaggagttcgag
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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