Basic Information
VIS ID
TVIS30008298
Fusion event
HIV-CCDC12 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
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
47014772/46973282 (Hg38)
End
47014772/46973282 (Hg38)
Orient
+
Location type
Intronic
Target gene
CCDC12
miRNAs that regulate target gene
hsa-mir-326
Nearest miRNA
hsa-mir-12127/Upstream/2111301; hsa-let-7g/Downstream/876273;
Nearest TSS
ENST00000440867/Upstream/49123; ENST00000475689/Downstream/3155;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/74474, chr3-CpG: 47/Downstream/3107
Upstream sequence
tgtctctactaaaataaaaaattagctgggcgtggtggcatacacctgtaatcccagctactggggaggctaaggcaggagaatcgcttgaacccaggag
Downstream sequence
gtggaagttgcagtgagctgagatcgtgccatcgcactccagcctgggcaacaagagcgaagctccatctcaaaaaaaaaaaaaaaaaaTtaatcccagc
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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