Basic Information
VIS ID
TVIS30000641
Fusion event
HIV-LSS 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
chr21
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
47636548/46216634 (Hg38)
End
47636548/46216634 (Hg38)
Orient
+
Location type
Intronic
Target gene
LSS
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-30a-5p ; hsa-mir-125b-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p
Nearest miRNA
hsa-let-7c/Upstream/738308;
Nearest TSS
ENST00000624081/Upstream/20263; ENST00000418029/Downstream/3635;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/33808, chr21-CpG: 140/Downstream/11643
Upstream sequence
AGCAGGAGTCAGTGGGAGACCCCAAGACTCAAGCCTGCCCCCTCCGCCAGCATCCATACCTTGGGCCCTTTCAAGCACGAACACTGGTGGATGGCTATTC
Downstream sequence
CCCACCACGTCAGTGCATCTGCGGGCATTTCCCAACCGTGCTCCTGAGGGGCACAGTTGAACCATAGGTGCACCCTCTGAGGAGCTGCACCTCCTAGTTC
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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