Basic Information
VIS ID
TVIS30011247
Fusion event
HIV-RLF 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
chr1
Cytoband
p34.2
Reference genome
GRCh37/hg19
Start
40663386/40197714 (Hg38)
End
40663386/40197714 (Hg38)
Orient
+
Location type
Intronic
Target gene
RLF
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-181a-5p ; hsa-mir-96-5p ; hsa-mir-877-3p ; hsa-mir-182-5p ; hsa-mir-17-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181d-5p
Nearest miRNA
hsa-mir-12136/Upstream/2108385; hsa-mir-101-1/Downstream/556641;
Nearest TSS
ENST00000473358/Upstream/36341; ENST00000468258/Downstream/48233;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/35774, chr1-CpG: 22/Downstream/60000
Upstream sequence
ATGGGGAGAAGCATTGCTTACCTAACATTCTTGGTATCCTGTTTATTCAGTAAATATTAATTAAGCACTCACTATCTTTAAGACTCTGAATAGGTACATG
Downstream sequence
ATACCTACATATCCAAGGAATTATGTTGAGGACCACAGTATAagtggtgggtaacatgtagcctgcctcctttcacagttggcccttaatctaatttcag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate