Basic Information
VIS ID
TVIS30007877
Fusion event
HIV-NOP58 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
chr2
Cytoband
q33.1
Reference genome
GRCh37/hg19
Start
203161887/202297164 (Hg38)
End
203161887/202297164 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2I
Target gene
NOP58
miRNAs that regulate target gene
hsa-mir-221-3p
Nearest miRNA
hsa-mir-10b/Upstream/13164053; hsa-mir-1244-1/Downstream/4486070;
Nearest TSS
ENST00000437798/Upstream/12726; ENST00000478508/Downstream/2694;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/31127, chr2-CpG: 66/Downstream/77978
Upstream sequence
aaaaagatgcacttcttttcagtgacctcatagcacagaactaatgtcactgagtagaaactaaagtttaaaaatattttttaaaaaaaCCTAGTTTGAG
Downstream sequence
CTAATATTTGACATGAATTGCTGTAAAATCTTTTCAGCCACAGAAGTGTTGGTGGTGATATATGGCCATTAGATTGTGGCAAAGGTTGAAATACGATGGA
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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