Basic Information
VIS ID
TVIS30005587
Fusion event
HIV-BMS1 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
q11.21
Reference genome
GRCh37/hg19
Start
43299087/42803639 (Hg38)
End
43299087/42803639 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10G
Target gene
BMS1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-1296-5p ; hsa-mir-484 ; hsa-mir-505-3p ; hsa-mir-4445-5p ; hsa-mir-6766-3p ; hsa-mir-4782-3p ; hsa-mir-219a-5p ; hsa-mir-508-3p ; hsa-mir-219b-5p ; hsa-mir-4793-5p ; hsa-mir-511-3p ; hsa-mir-5698 ; hsa-mir-143-5p ; hsa-mir-3907 ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-96-3p ; hsa-mir-2681-3p
Nearest miRNA
hsa-mir-1265/Upstream/7162387; hsa-mir-107/Downstream/193924;
Nearest TSS
ENST00000439456/Upstream/20838; ENST00000421320/Downstream/67882;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/20555, chr10-CpG: 53/Downstream/33300
Upstream sequence
TTAGTACTCTATGCAGCTTTATCACGTTACTAAGATACCAGTTATTAAAACCGTGTCTCAACAGTTTCCCTTTTTGTTCTGCTGGGGGGCTTCTTTTAGG
Downstream sequence
ATTCTCCTGACTATTCTCACCTTCTCACTTGCTTATTGTTTTTTCCATAGGAACTTAAGAATCGGCTTTTCTGTTTTCAAAAGAAAGTGTGGTGGGTTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate