Basic Information
VIS ID
TVIS30006219
Fusion event
HIV-LINC02397 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
chr12
Cytoband
q22
Reference genome
GRCh37/hg19
Start
92868208/92474432 (Hg38)
End
92868208/92474432 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12B
Target gene
LINC02397
Nearest miRNA
hsa-let-7i/Upstream/5729283; hsa-mir-1178/Downstream/2087357;
Nearest TSS
ENST00000382841/Upstream/7981; ENST00000397833/Downstream/228411;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/327875, chr12-CpG: 133/Downstream/454134
Nearby gene
CLLU1(No orient, 43430)
Upstream sequence
TATATTGCCTCAGAACTACTCCATCTCACTGCCTCACTTTAAATTCTGATTGACTGTAATGAGACCACAGACAGATTGATGAAATAAATTTAGATACTAA
Downstream sequence
ATAGCATTGTACTTGGGGTGATTTAGTTATATAGCTCATTTATTTCTTCAACAAATTTGTTGAACAGCAgtattagttaaggcaatgcaagctgatgtca
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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