Basic Information
VIS ID
TVIS30013810
Fusion event
HIV-USP9X 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
chrX
Cytoband
p11.4
Reference genome
GRCh37/hg19
Start
41034263/41175010 (Hg38)
End
41034263/41175010 (Hg38)
Orient
+
Location type
Intronic
Target gene
USP9X
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-1180-3p ; hsa-mir-330-3p ; hsa-mir-186-5p ; hsa-mir-222-3p ; hsa-mir-92a-3p ; hsa-mir-26b-5p ; hsa-mir-640 ; hsa-mir-3160-3p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-3151-3p ; hsa-mir-708-5p ; hsa-mir-3139 ; hsa-mir-28-5p ; hsa-mir-6818-3p ; hsa-mir-548s ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-3926 ; hsa-mir-3190-5p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-6849-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-6732-3p ; hsa-mir-1283 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-544b ; hsa-mir-7162-3p
Nearest miRNA
hsa-mir-1587/Upstream/1337397; hsa-let-7f-2/Downstream/4571147;
Nearest TSS
ENST00000429181/Upstream/7865; ENST00000465386/Downstream/8984;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/88343, chrX-CpG: 34/Downstream/78555
Upstream sequence
gaggcggaggttgcgttgagccgagatcatgccactgcactccagcctgggcgacagcgagattctgtctgaagaaaaaaaaaagtattttgtgcagagg
Downstream sequence
tactttgaaaatatttatactgttcctcatcagacattttattcattcgtttatatctgtatgaaatcatgatcaaggagttataatctgttactatcat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate