Basic Information
VIS ID
TVIS30005051
Fusion event
HIV-CCDC27 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
p36.32
Reference genome
GRCh37/hg19
Start
3684725/3768161 (Hg38)
End
3684725/3768161 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
CCDC27
Nearest miRNA
hsa-mir-12136/Upstream/207371; hsa-mir-101-1/Downstream/2094511;
Nearest TSS
ENST00000473358/Upstream/15716; ENST00000452264/Downstream/4600;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/20755, chr1-CpG: 105/Downstream/3828
Upstream sequence
AAAAAGGAAATCAATAAAGAGCTGACCttttttttttttttttttttttctgagacagggtctttctctgtcatccagtctggagtgcagtggggtgata
Downstream sequence
acagctcactgcagccttggcctcccaggctcaagctgtcgtcatcccacctcagcctcctgagtagctgggaccacaggcatgtgccaccatacctggc
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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