Basic Information
VIS ID
TVIS30008838
Fusion event
HIV-PJA2 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
chr5
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
108706815/109371114 (Hg38)
End
108706815/109371114 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5F
Target gene
PJA2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-27a-3p ; hsa-mir-505-3p ; hsa-mir-485-3p
Nearest miRNA
hsa-mir-10397/Upstream/8554549; hsa-mir-103a-1/Downstream/1142715;
Nearest TSS
ENST00000502646/Upstream/44745; ENST00000509496/Downstream/12319;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/621612, chr5-CpG: 61/Downstream/38111
Upstream sequence
actacaggcttgggttcaaacctgactctgctgcctgttttttaatggtgtgtgagctaaaaatggtttttacatgtttatctttaattttgcctcttag
Downstream sequence
tcaccaaagcctaaaatatttaccatcagctcctttaagaaaaggtttgcagaccccACGCCTATATCATTATTACTCATGATACCTAACCCTCAATGCT
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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