Basic Information
VIS ID
TVIS30008824
Fusion event
HIV-ST8SIA4 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
chr5
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
100195465/100859761 (Hg38)
End
100195465/100859761 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5F
Target gene
ST8SIA4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-8485 ; hsa-mir-135a-5p ; hsa-mir-3140-3p ; hsa-mir-4776-3p ; hsa-mir-487b-5p ; hsa-mir-487a-5p ; hsa-mir-4659b-5p ; hsa-mir-4659a-5p ; hsa-mir-5590-5p ; hsa-mir-664a-3p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-181c-5p
Nearest miRNA
hsa-mir-10397/Upstream/43196; hsa-mir-103a-1/Downstream/9654068;
Nearest TSS
ENST00000502646/Upstream/201791; ENST00000506058/Downstream/31121;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/323745, chr5-CpG: 32/Downstream/41102
Upstream sequence
CATCCCTACATGCAAAATTGAAGGTACTTTCATGttaatttaaaagttatataaaatatttattttaGAATTCATAGGGAATAAATGTTTATTTCATGTG
Downstream sequence
TGAGCACCTCAAGATTACAGAATTCCCTAGCAAAAAATCTCTCTTGGATTGGCCATTATTCTCTGCAGTTAAATGATACTTCAACAATGTATGCAACTAG
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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