Basic Information
VIS ID
TVIS30010289
Fusion event
HIV-IFT88 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
chr13
Cytoband
q12.11
Reference genome
GRCh37/hg19
Start
21163573/20589434 (Hg38)
End
21163573/20589434 (Hg38)
Orient
+
Location type
Intronic
Target gene
IFT88
miRNAs that regulate target gene
hsa-mir-548a-5p
Nearest miRNA
hsa-mir-4499/Upstream/155588; hsa-mir-1267/Downstream/3572982;
Nearest TSS
ENST00000623511/Upstream/22268; ENST00000461115/Downstream/7580;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/21854, chr13-CpG: 156/Downstream/113660
Nearest cancer related gene
IFT88(TSG, No orient, 0)
Upstream sequence
tctaactacaattttgtgatccgtatactttgtattcttatttaaaagatgagaaaactgtaggttcaaagagattaaataaaggtatctgttataggga
Downstream sequence
tagctgagattcaaacccaagttctcagaccccaaatcttgtgtctattgtttggccTAGTGGCTAGCAGTAATAATTATGCAATAAAATGTTTAATTCG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate