Basic Information
VIS ID
TVIS30000477
Fusion event
HIV-PGGT1B 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr5
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
114588954/115253257 (Hg38)
End
114588954/115253257 (Hg38)
Orient
-
Location type
splicing
Target gene
PGGT1B
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-591 ; hsa-mir-582-3p ; hsa-mir-582-5p ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4795-5p ; hsa-mir-4282 ; hsa-mir-30d-5p ; hsa-mir-30e-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-487b-5p ; hsa-mir-487a-5p ; hsa-mir-1185-2-3p ; hsa-mir-1185-1-3p ; hsa-let-7f-2-3p ; hsa-mir-4789-5p ; hsa-mir-98-3p ; hsa-let-7f-1-3p ; hsa-let-7b-3p ; hsa-let-7a-3p ; hsa-mir-3614-5p ; hsa-mir-942-3p ; hsa-mir-4802-3p ; hsa-mir-1276
Nearest miRNA
hsa-mir-10397/Upstream/4739342; hsa-mir-103a-1/Downstream/1002486;
Nearest TSS
ENST00000502646/Upstream/81; ENST00000606615/Downstream/9248;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/72734, chr5-CpG: 35/Downstream/9347
Upstream sequence
GCAGGGAATAAATCCACTCTATTATATCATCTTTGTTCACCACATCTAAGGAATCCAACATATCCAGCCCGGAGAGTGCAAAAAATGCAATTGTCAACCT
Downstream sequence
AAAAGAAAAAAATGTAAAATTCCATCTTAACTATCATACCACTTAAGTCTGAAGTCTTCCTGGTCTAGAAAAATAATAAAATCATTCTAATTTTCCAATA
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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