Basic Information
VIS ID
TVIS30007640
Fusion event
HIV-SOS1 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
chr2
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
39294104/39066963 (Hg38)
End
39294104/39066963 (Hg38)
Orient
+
Location type
Intronic
Target gene
SOS1
miRNAs that regulate target gene
hsa-mir-23b-3p ; hsa-mir-4325 ; hsa-mir-4789-5p ; hsa-mir-5011-5p ; hsa-mir-124-3p ; hsa-mir-3157-5p ; hsa-mir-6715a-3p ; hsa-mir-4691-3p ; hsa-mir-5571-5p ; hsa-mir-5089-3p ; hsa-mir-466 ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-548an ; hsa-mir-1178-3p ; hsa-mir-196b-3p ; hsa-mir-3613-3p ; hsa-mir-433-5p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-128-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-146a-5p
Nearest miRNA
hsa-mir-1301/Upstream/3595477; hsa-mir-10b/Downstream/8310712;
Nearest TSS
ENST00000437798/Upstream/15606; ENST00000366187/Downstream/53487;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/106136, chr2-CpG: 126/Downstream/53147
Upstream sequence
TTGGACATATGCCACTCCTAAAGGTATGGGTATATCATTCTATCATCAAGAAATTGTTCGTTTTAGCTTACAAACAAAAAAATGTATAGTTTAACAGCTA
Downstream sequence
GAATATATACAAACTATCCTATATGCAATAcaggttgattatccctaatccaaaaatccaaaatctgaaacttttagcatttttttttggagtcatggtt
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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