Basic Information
VIS ID
TVIS30003007
Fusion event
HIV-PBX4 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
chr19
Cytoband
p13.11
Reference genome
GRCh37/hg19
Start
19684827/19574018 (Hg38)
End
19684827/19574018 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
PBX4
miRNAs that regulate target gene
hsa-mir-1274a
Nearest miRNA
hsa-mir-10395/Upstream/138860; hsa-let-7e/Downstream/825254;
Nearest TSS
ENST00000633603/Upstream/10194; ENST00000559614/Downstream/5936;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/28009, chr19-CpG: 60/Downstream/44300
Upstream sequence
agggtttcaccatgttggccaggctaatctcgaattcctgacctcaagtgatccacccaccttggcctcccaatgtgctgggattacaggcgtgagtcac
Downstream sequence
cacacccagccTcacacccagataatttttgtatttttaggagatacggggtttcaccatgttgcccaggctagtctcgaactcctgagctcaagcgatc
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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