Basic Information
VIS ID
TVIS30010157
Fusion event
HIV-LOC399815 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
chr10
Cytoband
q26.13
Reference genome
GRCh37/hg19
Start
124643082/122883566 (Hg38)
End
124643082/122883566 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA10D ; FRA10F ; FRA10A ; FRA10B
Target gene
LOC399815
Nearest miRNA
hsa-mir-107/Upstream/466499; hsa-mir-202/Downstream/2149217;
Nearest TSS
ENST00000439456/Upstream/3925; ENST00000368894/Downstream/27135;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/3289, chr10-CpG: 90/Downstream/70186
Upstream sequence
ATTTTACCTTCTTTCATATATTTAGTATATTTTTTTAGTTTGAAAATGACATTGTCTTATATAAATTGTTCTTCTGAGTTTCATAATAAATTGAAACCTC
Downstream sequence
TGACCATTACTGTATTAGGGAAAACTTGAAAATATATTTAAAGTTTATATTTGTTTTCCTGAATACTTTACTCTTGTTGATAATACAAAGGAGTGACCTT
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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