Basic Information
VIS ID
TVIS30008823
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
100184520/100848816 (Hg38)
End
100184520/100848816 (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/32251; hsa-mir-103a-1/Downstream/9665013;
Nearest TSS
ENST00000502646/Upstream/190846; ENST00000506058/Downstream/42066;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/312800, chr5-CpG: 32/Downstream/52047
Upstream sequence
ATATAGGTTTTCCACAATTGACATTTATCAAAAAAGTTACGCatttttaaaaaaattaataattGCAGAAATCAAAGAAAGGGCAAATTCAGCAACAAAC
Downstream sequence
ATGTCTGTCTATTCTTTTtatataatatttacctaggtatatatacatgcttatatatatgaatgtgtaactatgtgtgtctatgtgtgtatatatattt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate