Basic Information
VIS ID
TVIS30004642
Fusion event
HIV-NPEPPS 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
q21.32
Reference genome
GRCh37/hg19
Start
45656113/47578747 (Hg38)
End
45656113/47578747 (Hg38)
Orient
+
Location type
Intronic
Target gene
NPEPPS
miRNAs that regulate target gene
hsa-mir-122-5p ; hsa-mir-484 ; hsa-mir-423-3p ; hsa-mir-320a ; hsa-mir-27b-3p ; hsa-mir-93-5p ; hsa-mir-27a-3p ; hsa-mir-491-3p ; hsa-mir-659-3p ; hsa-mir-873-5p ; hsa-mir-1277-5p ; hsa-mir-3942-3p ; hsa-mir-4424 ; hsa-mir-5100 ; hsa-mir-218-1-3p ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-3189-3p ; hsa-mir-10b-3p ; hsa-mir-141-5p ; hsa-mir-500a-5p ; hsa-mir-500b-5p ; hsa-mir-362-5p ; hsa-mir-212-5p ; hsa-mir-6807-5p ; hsa-mir-6862-3p ; hsa-mir-516a-5p ; hsa-mir-4267 ; hsa-mir-500b-3p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-9500 ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-5584-5p ; hsa-mir-548m
Nearest miRNA
hsa-mir-1180/Upstream/605647; hsa-mir-10226/Downstream/454135;
Nearest TSS
ENST00000595228/Upstream/9318; ENST00000534727/Downstream/4051;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/47132, chr17-CpG: 137/Downstream/70560
Upstream sequence
aataatttattaattaaatGTATTTCTTTGTCAGATTTCAAATGATTGAGGTGACTTGTAAGAATTTGTTTTATGCCCTGTTGCTGATCAAATCATTGGT
Downstream sequence
CTTCCCTATAGCTCCTTACAAAATTATGCAATCAGTGTTCCATTTGGAGTAAACATTTAGTGTCTTATCTTGATAGAGTAATTGGCTACATTTCTCTTTC
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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