Basic Information
VIS ID
TVIS30002775
Fusion event
HIV-RPS6KB1 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
chr17
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
57989546/59912185 (Hg38)
End
57989546/59912185 (Hg38)
Orient
-
Location type
Intronic
Target gene
RPS6KB1
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-103a-3p ; hsa-mir-98-5p ; hsa-mir-16-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-15a-5p ; hsa-mir-107 ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-548c-3p ; hsa-mir-4668-3p ; hsa-mir-5571-3p ; hsa-mir-6838-5p ; hsa-mir-1253 ; hsa-mir-3161 ; hsa-mir-145-5p ; hsa-mir-138-2-3p ; hsa-mir-451b ; hsa-mir-599 ; hsa-mir-580-3p ; hsa-mir-6770-5p ; hsa-mir-500b-5p ; hsa-mir-362-5p ; hsa-mir-500a-5p ; hsa-mir-455-5p ; hsa-mir-200c-3p ; hsa-mir-218-5p ; hsa-mir-1271-3p ; hsa-mir-4275 ; hsa-mir-550a-3-5p ; hsa-mir-550a-5p ; hsa-mir-550b-2-5p
Nearest miRNA
hsa-mir-10226/Upstream/70848; hsa-mir-1250/Downstream/130840;
Nearest TSS
ENST00000595228/Upstream/5197; ENST00000587622/Downstream/19135;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/18525, chr17-CpG: 23/Downstream/52300
Upstream sequence
TTCTTTGTCAACTTAATGAACTTTTTCTAACTTACCTTAGCTTTGGGGTGCTTGATGCTTATGAAAATAAATAATTGTCTTCTTTTACTTTGTTGCACTC
Downstream sequence
CTAAGAGCAAGATGGGTCACCAGCAGCTGTATTGGAGTCACCCATGAAAATTCAATCAGGGTTCTTGCTCTTGTTGTGTCTGCTCAAACTGGCAAGGTCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate