Basic Information
VIS ID
TVIS30007480
Fusion event
HIV-GPI 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
chr19
Cytoband
q13.11
Reference genome
GRCh37/hg19
Start
34866102/34375197 (Hg38)
End
34866102/34375197 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
GPI
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-1180-3p ; hsa-mir-1296-5p ; hsa-mir-1229-3p ; hsa-mir-760 ; hsa-mir-92b-5p ; hsa-mir-296-3p ; hsa-mir-20a-3p ; hsa-mir-671-5p ; hsa-mir-193b-3p ; hsa-mir-346 ; hsa-mir-331-3p ; hsa-mir-149-5p ; hsa-mir-17-5p ; hsa-let-7b-5p ; hsa-mir-128-3p ; hsa-mir-216a-3p ; hsa-mir-3681-3p ; hsa-mir-378a-5p ; hsa-mir-4524a-3p ; hsa-mir-4786-5p ; hsa-mir-593-3p ; hsa-mir-6728-3p ; hsa-mir-6760-3p ; hsa-mir-6818-3p ; hsa-mir-6831-3p ; hsa-mir-6895-3p
Nearest miRNA
hsa-mir-10395/Upstream/13975843; hsa-let-7e/Downstream/747503;
Nearest TSS
ENST00000633603/Upstream/9635; ENST00000590362/Downstream/3781;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/9187, chr19-CpG: 67/Downstream/29050
Upstream sequence
attgtataacaaatgacatcaaaacttgggttaaaacagcaatacacttttttttttttttttaagacggagtcttgctctgtcgcccaggctagagtgc
Downstream sequence
aatggcgtgatctccactcactgcaacctctgcctcctggatttaagcaattctcctgcctcagcctcccgagtagctgagattacaggcacacgccacc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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