Basic Information
VIS ID
TVIS30013400
Fusion event
HIV-MSH5-SAPCD1 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
31715863/31748086 (Hg38)
End
31715863/31748086 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA6H
Target gene
MSH5-SAPCD1
Nearest miRNA
hsa-mir-3143/Upstream/46995; hsa-mir-10398/Downstream/208753;
Nearest TSS
ENST00000381078/Upstream/3855; ENST00000468602/Downstream/3410;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/7527, chr6-CpG: 76/Downstream/47377
Upstream sequence
agtgagactccgtctcaaaaaaaaaaaaaaaTGCTAATGTAACACATGGCTATGTTAGCATGGTTATCTTTAGTTATAGAAAACACACTTCACATTTCTG
Downstream sequence
tgatgactctcaaatttgtgtctctagttttgaactccgtatgtgaatgttaattgcatatcaccacctgcagttttcacaggcagctcaaactcagagc
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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