Basic Information
VIS ID
TVIS30011607
Fusion event
HIV-RAB6A 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
chr11
Cytoband
q13.4
Reference genome
GRCh37/hg19
Start
73447528/73736483 (Hg38)
End
73447528/73736483 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
RAB6A
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-335-5p ; hsa-mir-375 ; hsa-mir-186-5p ; hsa-mir-21-5p ; hsa-mir-324-5p ; hsa-mir-4668-5p ; hsa-mir-2053 ; hsa-mir-488-3p ; hsa-mir-4699-5p ; hsa-mir-382-5p ; hsa-mir-548an ; hsa-mir-195-3p
Nearest miRNA
hsa-mir-10392/Upstream/952891; hsa-let-7a-2/Downstream/662754;
Nearest TSS
ENST00000527297/Upstream/14134; ENST00000540547/Downstream/23612;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/74896, chr11-CpG: 112/Downstream/23747
Upstream sequence
gtgccactgcactccagcctgggcaacagagaaagactctgtctccaaaaaaaaaagaaaaagaaaTTCACCAGTGAAAGTAATTCTAGATGAAGGTATC
Downstream sequence
TCCTAATTGAAAACAAGTACAGTTggccaggcgcggtgtggctcacgcctgtaatcccagcactttgggaggccaaggtgggtagatcacctgaggtcag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate