Basic Information
VIS ID
TVIS30004607
Fusion event
HIV-RABEP1 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
p13.2
Reference genome
GRCh37/hg19
Start
5216937/5313642 (Hg38)
End
5216937/5313642 (Hg38)
Orient
+
Location type
Intronic
Target gene
RABEP1
miRNAs that regulate target gene
hsa-mir-373-3p ; hsa-let-7f-5p ; hsa-mir-106b-5p ; hsa-mir-20a-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6797-3p ; hsa-mir-6076 ; hsa-mir-552-3p ; hsa-mir-551b-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-1253/Upstream/343492; hsa-mir-10226/Downstream/1341798;
Nearest TSS
ENST00000595228/Upstream/31155; ENST00000570487/Downstream/18413;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/30795, chr17-CpG: 95/Downstream/105545
Upstream sequence
GACTAAGAACCTCCCATTTCTGAAATGCATTATCAACTGCAGTTTTAGATCTGTGAATTAAAGAGCTTGTAACATGGGTTGGTTCAGAAAACATGCTTGG
Downstream sequence
TTTGTTAAGATTGCATTGATGCATCTAAACCCGGTAAATGGGCTTTTTGTGTACTGTTGTATCTTTACTGTCCAGAGCGCTCAGTAAACTCAGTTGGCCA
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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