Basic Information
VIS ID
TVIS30003945
Fusion event
HIV-SCAF8 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
q25.2
Reference genome
GRCh37/hg19
Start
155115087/154793953 (Hg38)
End
155115087/154793953 (Hg38)
Orient
+
Location type
Intronic
Target gene
SCAF8
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-29b-3p ; hsa-mir-92a-3p ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-10398/Upstream/3691177; hsa-mir-1202/Downstream/59407;
Nearest TSS
ENST00000381078/Upstream/60100; ENST00000479234/Downstream/28209;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/59684, chr6-CpG: 19/Downstream/200954
Upstream sequence
AGTTCCAAGAATTAAATTGGTTAGCATTTCATAATTTTGTATGTATTTTGTGTGTGTGTGTGTATGAACAAAAATTGATGTACTGttttttgagaccttg
Downstream sequence
ctctgtcacccaggcgggtgtgcagtggtgtgatcatagctcactgcagcctcgacctcctggcttctagtgatcctcccatctcagcctcctaagtagg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate