Basic Information
VIS ID
TVIS30012168
Fusion event
HIV-PDXDC2P-NPIPB14P 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
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
70063088/70029185 (Hg38)
End
70063088/70029185 (Hg38)
Orient
-
Location type
ncRNA_intronic
Fragile sites / regions
FRA16B
Target gene
PDXDC2P-NPIPB14P
Nearest miRNA
hsa-mir-1225/Upstream/96005; hsa-mir-11401/Downstream/1161;
Nearest TSS
ENST00000527434/Upstream/77444; ENST00000561920/Downstream/84441;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/63311, chr16-CpG: 96/Downstream/36186
Upstream sequence
aaatagaaaaaGACAAAAAAAAAAGAAATAAGAAAAAAatgttttgcaaatatttctcccagtctgcaacttgcctttcaccttcttaataggggctttc
Downstream sequence
aaacagctaatgcttttaatttttgataaagtacaatttatggttcacatattttgtatcctaagaaacgtaacctaaggtcacaaagatctactgtatt
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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