Basic Information
VIS ID
TVIS30004328
Fusion event
HIV-SPEN 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
p36.13
Reference genome
GRCh37/hg19
Start
16244920/15918425 (Hg38)
End
16244920/15918425 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
SPEN
miRNAs that regulate target gene
hsa-mir-151a-5p ; hsa-mir-877-3p ; hsa-mir-23b-5p ; hsa-mir-769-5p ; hsa-mir-615-3p ; hsa-mir-193b-3p ; hsa-mir-423-3p ; hsa-mir-324-5p ; hsa-mir-331-3p ; hsa-mir-328-3p ; hsa-mir-106b-5p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-125b-5p ; hsa-mir-196a-5p ; hsa-mir-92a-3p ; hsa-mir-16-5p ; hsa-mir-18a-5p ; hsa-mir-18b-5p ; hsa-mir-214-3p ; hsa-mir-3619-5p ; hsa-mir-4722-5p ; hsa-mir-4735-3p ; hsa-mir-4768-3p ; hsa-mir-6165 ; hsa-mir-761 ; hsa-mir-885-3p
Nearest miRNA
hsa-mir-12136/Upstream/3339402; hsa-mir-101-1/Downstream/940524;
Nearest TSS
ENST00000473358/Upstream/41849; ENST00000487496/Downstream/20158;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/68803, chr1-CpG: 22/Downstream/15950
Upstream sequence
ctcttgcctcagccttcagaataactaggattacaggcatgtgccgccatgcctggctaatttttgtatttttagtagagacaggttttcaccgtgttgg
Downstream sequence
ccaggctggtgtcgaactcctgacctcaagtgatccgcccgcctccacctcccaaagtgctaggattacaggcgtgagccacggtgcgcagccAGATATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate