Basic Information
VIS ID
TVIS30005039
Fusion event
HIV-MRPL20 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
p36.33
Reference genome
GRCh37/hg19
Start
1340036/1404656 (Hg38)
End
1340036/1404656 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
MRPL20
miRNAs that regulate target gene
hsa-mir-16-5p
Nearest miRNA
hsa-mir-12136/Upstream/64948; hsa-mir-101-1/Downstream/1723319;
Nearest TSS
ENST00000473358/Upstream/5328; ENST00000607307/Downstream/1651;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/4434, chr1-CpG: 92/Downstream/2072
Upstream sequence
gtggcgtgaactcggctcactgcagcctctgcctcccaagttcaagcgattctccagcctcagcctcctgagtagctgggactacaggtgccggccacca
Downstream sequence
tgcccagctaatttttcgtatttttagtagagaccgggtttcacctgttagccaggatggtctcaatatcctgacctcatgatctgtccgcctcagcctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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