Basic Information
VIS ID
TVIS30002332
Fusion event
HIV-HERC1 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
chr15
Cytoband
q22.31
Reference genome
GRCh37/hg19
Start
64013368/63721169 (Hg38)
End
64013368/63721169 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA15A
Target gene
HERC1
miRNAs that regulate target gene
hsa-mir-455-3p ; hsa-mir-193b-3p ; hsa-mir-324-3p ; hsa-mir-92a-3p ; hsa-mir-18a-5p
Nearest miRNA
hsa-mir-10393/Upstream/897128; hsa-mir-11181/Downstream/149761;
Nearest TSS
ENST00000557528/Upstream/43183; ENST00000558050/Downstream/2088;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/119457, chr15-CpG: 118/Downstream/112146
Upstream sequence
GTGATAATGTGGTATAGAAAACCTAACTGCACATCCCAAGCAAATGTTACAAATATGAAATATCAGAAAATACATCTTAGAAAGTAAACTTTTTTCCTCC
Downstream sequence
TCATTACTATTTCACCTCTGGTAGGAGTCACCACAACAGAATGAATGAATAAATGATTAACAAACAAAATGGggccaggcgccgtggctcacacctgtaa
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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