Basic Information
VIS ID
TVIS30001784
Fusion event
HIV-RNLS 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
chr10
Cytoband
q23.31
Reference genome
GRCh37/hg19
Start
90169692/88409935 (Hg38)
End
90169692/88409935 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D
Target gene
RNLS
miRNAs that regulate target gene
hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4708-3p ; hsa-mir-892c-5p ; hsa-mir-9500 ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-5584-5p ; hsa-mir-4735-3p ; hsa-mir-18b-5p ; hsa-mir-18a-5p ; hsa-mir-548n
Nearest miRNA
hsa-mir-1265/Upstream/905981; hsa-mir-107/Downstream/653400;
Nearest TSS
ENST00000439456/Upstream/457736; ENST00000526923/Downstream/173255;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/545607, chr10-CpG: 61/Downstream/172836
Upstream sequence
CTCTGTGTTGCATATAATAAAGAGGAAGCTTTATTTGTTTTAATATTCATTGTTAATATTAAAggtcaggaaactttttctgtaaagtgtcagacagcaa
Downstream sequence
atactttaggcattgtgggacatacagtgtcccttgcaactactcagctctgacattagatcatgaaagcagccacagacaatgtgtaaatgaatgtgtg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate