Basic Information
VIS ID
TVIS30011468
Fusion event
HIV-OGA 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
q24.32
Reference genome
GRCh37/hg19
Start
103564550/101804793 (Hg38)
End
103564550/101804793 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
OGA
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-30c-5p ; hsa-mir-17-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p
Nearest miRNA
hsa-mir-107/Upstream/203296; hsa-mir-1307/Downstream/631719;
Nearest TSS
ENST00000439456/Upstream/5461; ENST00000412353/Downstream/13073;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/21260, chr10-CpG: 68/Downstream/12844
Upstream sequence
aatcctctcacctcagcctcccaagtagctgggactacaggtgtgccccaccatgtcacagtaatttaaaatttttttgtacagataagggcttgctatg
Downstream sequence
ttgcccaggctaatcttaaactcctggcctcaagcgatcctcctacctcaactcaagcctcccacagcactgggattacaggcacgaaccaatgcaccca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate