Basic Information
VIS ID
TVIS30002883
Fusion event
HIV-ANKRD12 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
chr18
Cytoband
p11.22
Reference genome
GRCh37/hg19
Start
9245830/9245832 (Hg38)
End
9245830/9245832 (Hg38)
Orient
+
Location type
Intronic
Target gene
ANKRD12
miRNAs that regulate target gene
hsa-mir-342-5p ; hsa-mir-365a-3p ; hsa-mir-17-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-374a-5p ; hsa-mir-155-5p ; hsa-mir-1273e ; hsa-mir-3692-3p ; hsa-mir-140-3p ; hsa-mir-144-3p
Nearest miRNA
hsa-mir-3976/Upstream/2871407; hsa-mir-1-2/Downstream/1513752;
Nearest TSS
ENST00000575820/Upstream/29052; ENST00000581641/Downstream/88609;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/108236, chr18-CpG: 134/Downstream/88066
Upstream sequence
TTAAAATAATACTTTGTTCTAGAGCCTAGATTTTTGTGGCAGGGTTGTTTTGTCAATATACTCAATCATGAAATAAAGATAGAAGTAGAAGATATTCAGA
Downstream sequence
TACTTACGGAAAGGTCACAAAGTATGGCATCATTTTATTGGATGTTTATACAGTATATATTTGGTGTCTTTTATATACTAGGAAGTAACatagcatgatg
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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