Basic Information
VIS ID
TVIS30005467
Fusion event
HIV-NR5A2 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
q32.1
Reference genome
GRCh37/hg19
Start
200131446/200162318 (Hg38)
End
200131446/200162318 (Hg38)
Orient
+
Location type
Intronic
Target gene
NR5A2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-139-5p ; hsa-mir-653-5p ; hsa-mir-570-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-376c-3p ; hsa-mir-27b-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1303165; hsa-mir-1182/Downstream/1557190;
Nearest TSS
ENST00000473358/Upstream/118508; ENST00000635220/Downstream/153649;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/14242, chr1-CpG: 24/Downstream/139830
Upstream sequence
catgtaatacccaatgccctgcatgatgggcaaatagagtgtgctgtagactcacagcagagaggacttcaaggaggcttcctggacgtaatgatatctg
Downstream sequence
cgctgaggcccaggagattggtcaaaattatccaaataaaggttaggggaagaaagttccaggtaCTGGCCAGGCACATTCAAGAAACTGAAAGAAGTTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate