Basic Information
VIS ID
TVIS30003708
Fusion event
HIV-LINC02100 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
p14.3
Reference genome
GRCh37/hg19
Start
18742140/18742031 (Hg38)
End
18742140/18742031 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5E
Target gene
LINC02100
Nearest miRNA
hsa-mir-10397/Upstream/1586039; hsa-mir-103a-1/Downstream/13194071;
Nearest TSS
ENST00000502646/Upstream/822803; ENST00000513573/Downstream/4142;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/1086417, chr5-CpG: 45/Downstream/1563422
Nearby gene
CDH18(No orient, 731015)
Upstream sequence
tatggtatagcctatagctcccgagctacaaatctgtacagcatgttactgtactaaataccaaaagcaactgtaacatgatggtaaatatttgggtatc
Downstream sequence
aaaatatatctaaacatagataaggtacatatttaaaagataaaaaatgatacacctgtatagggccgttaccaagaatggagtttgccagattgaaaat
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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