Basic Information
VIS ID
TVIS30010471
Fusion event
HIV-SPNS3 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
4356931/4453636 (Hg38)
End
4356931/4453636 (Hg38)
Orient
+
Location type
Intronic
Target gene
SPNS3
miRNAs that regulate target gene
hsa-mir-1202 ; hsa-mir-3194-5p ; hsa-mir-3925-3p ; hsa-mir-3972 ; hsa-mir-4267 ; hsa-mir-4722-3p ; hsa-mir-6512-3p ; hsa-mir-6720-5p ; hsa-mir-6727-3p ; hsa-mir-6747-3p ; hsa-mir-6849-3p ; hsa-mir-766-3p
Nearest miRNA
hsa-mir-1253/Upstream/1705454; hsa-mir-10226/Downstream/516066;
Nearest TSS
ENST00000595228/Upstream/7032; ENST00000575796/Downstream/29948;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/86776, chr17-CpG: 109/Downstream/45028
Upstream sequence
gaacgcgggaggtggaggttgcagtgagctgagattgcgccactgcactccagcctgggcaatggagcaagactccatcttgggggaaaaaaacagagag
Downstream sequence
agaagcttaccaggagttccacagtgaagaaggggcagaactgggatttgagcctgagcttttctgactgtaaaaggtgtcctctGAGCATTGGGTTAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate