Basic Information
VIS ID
TVIS30009785
Fusion event
HIV-SHOC1 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
chr9
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
114467845/111705565 (Hg38)
End
114467845/111705565 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA9E
Target gene
SHOC1
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-let-7a-1/Upstream/434351; hsa-mir-12126/Downstream/226535;
Nearest TSS
ENST00000422679/Upstream/44230; ENST00000489355/Downstream/53968;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/43537, chr9-CpG: 22/Downstream/89442
Upstream sequence
AAAATAATATTCAATGTAAAAAATCAGAAACAGAATAAAGACAGGCTTGAAGAAGAAAATAAAAACCATGTTATCCTACCGAGAAATAAGTTAATAGAGT
Downstream sequence
TTACTAATACCACTATACACTAAAAACAGAGTTTTGCATATATTTCCAGACTTTTTTCAGTATATTTTCTTGCTTATACTCACACATGTACACTCACTTC
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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