Basic Information
VIS ID
TVIS30003959
Fusion event
HIV-SDK1 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
chr7
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
3526801/3487169 (Hg38)
End
3526801/3487169 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
SDK1
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-625-5p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-3202 ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-3179 ; hsa-mir-1252-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-6794-5p ; hsa-mir-4716-3p ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-6758-5p ; hsa-mir-128-2-5p ; hsa-mir-128-1-5p ; hsa-mir-6780b-5p ; hsa-mir-4271 ; hsa-mir-4725-3p ; hsa-mir-6877-5p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-6784-5p ; hsa-mir-6892-3p ; hsa-mir-6891-5p ; hsa-mir-6783-5p ; hsa-mir-3173-3p
Nearest miRNA
hsa-mir-339/Upstream/960024; hsa-mir-10399/Downstream/1301396;
Nearest TSS
ENST00000635602/Upstream/184717; ENST00000478527/Downstream/156615;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/185068, chr7-CpG: 21/Downstream/626844
Upstream sequence
agtcgccttacacaatatgtaaatgcaagtgcagctctgttccaataaaattttatttacaaaaacatgtggcaggctagaattggcccactggtcttag
Downstream sequence
tgtgccagctcctgGTCAGCATAAGCCTTATGACACTCTGAAATTTAGATATTAAGTTTATGTAATATCGTATATGTCTGTTAACCTTTTGGGTAGTAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate