Basic Information
VIS ID
TVIS30011708
Fusion event
HIV-LOC100288798 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
q13.11
Reference genome
GRCh37/hg19
Start
46805435/46411652 (Hg38)
End
46805435/46411652 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA12A
Target gene
LOC100288798
Nearest miRNA
hsa-mir-1244-3/Upstream/4087793; hsa-let-7i/Downstream/776160;
Nearest TSS
ENST00000382841/Upstream/22796; ENST00000607353/Downstream/125850;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/27579, chr12-CpG: 64/Downstream/419477
Upstream sequence
gttcctatctcttgtattagatttagttgtttgcatgcttgtttcccccctttggagtgtagacttcttgcaggcaaggatgaaggcttcctcctcttcg
Downstream sequence
ctttcactgcatctagtacagagcactactcagtaaatatcagAGCACTTAGATAAGTTGGTTAGTCTACACTAACTTGGATTAAACCTTTTTGCTGCCA
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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