Basic Information
VIS ID
TVIS30007970
Fusion event
HIV-ASXL1 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
chr20
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
30984559/32396756 (Hg38)
End
30984559/32396756 (Hg38)
Orient
+
Location type
Intronic
Target gene
ASXL1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-331-3p ; hsa-mir-6077 ; hsa-mir-7150 ; hsa-mir-6835-5p ; hsa-mir-3190-3p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-4736 ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-6849-5p ; hsa-mir-4270 ; hsa-mir-3681-5p ; hsa-mir-6732-5p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-4463 ; hsa-mir-7-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/158909; hsa-mir-1-1/Downstream/1652363;
Nearest TSS
ENST00000382410/Upstream/30372; ENST00000644060/Downstream/30316;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/37526, chr20-CpG: 22/Downstream/59381
Nearest cancer related gene
ASXL1(TSG, No orient, 0)
Upstream sequence
gtcagaataattctaaagcacaattctgatattgtcactgtattgctTTTCAGTGCCTACAGCAGTAGGATTCACTTAAAAAATTATTCCCCTAATAGTA
Downstream sequence
ATATAAAAAATTTTTTTGAGCTCAAACTCTCATTCTCTCTCAGTATACATATTTGTTTATACATGAGGTCACATACTGCTTACTAAGTTAGCATTTTTTA
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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