Basic Information
VIS ID
TVIS30007750
Fusion event
HIV-CCDC138 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
chr2
Cytoband
q13
Reference genome
GRCh37/hg19
Start
109474125/108857669 (Hg38)
End
109474125/108857669 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
CCDC138
Nearest miRNA
hsa-mir-1285-2/Upstream/6425303; hsa-mir-10b/Downstream/283821;
Nearest TSS
ENST00000437798/Upstream/741; ENST00000609740/Downstream/24522;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/70559, chr2-CpG: 21/Downstream/84840
Upstream sequence
TTCTCCTGTCCCAAAATGTCCTATATTGTCTGATGTATTTTATCAACGTTTTTAGCTATTTGTAACTGTTAAAATATTGGACTTACAGTTGATGACTAGC
Downstream sequence
TACCTAGATTAGTAATCTTGGAGTTGTGTATTTCAGTTTACTAATGTAAGGAGTAGAATGAAAAGTGAAAAGTTAGTGAACTGAGGGATCCAGTATTACT
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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