Basic Information
VIS ID
TVIS30006136
Fusion event
HIV-RPAP3 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
chr12
Cytoband
q13.11
Reference genome
GRCh37/hg19
Start
48094990/47701207 (Hg38)
End
48094990/47701207 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
RPAP3
miRNAs that regulate target gene
hsa-mir-192-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/336938; hsa-let-7i/Downstream/431590;
Nearest TSS
ENST00000382841/Upstream/3506; ENST00000621159/Downstream/1609;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/465310, chr12-CpG: 69/Downstream/4327
Upstream sequence
agttttgatactgtatactacagctaagaaagatgtaaccaccagaggaaactggatgaagagcacactggatAAATAAATAGTAATAAGTAAACAGTAA
Downstream sequence
TTTTTGTAAAAAGAAAGAAAAAAGAATAAAATCCTGGCTGTTTTAGCCACCATTTGCTGAAAGAGGATTGCAGAAAAAAAAATTATCTCATTAACTAAAG
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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