Basic Information
VIS ID
TVIS30000703
Fusion event
HIV-SYNE1 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
chr6
Cytoband
q25.2
Reference genome
GRCh37/hg19
Start
152497744/152176609 (Hg38)
End
152497744/152176609 (Hg38)
Orient
-
Location type
Intronic
Target gene
SYNE1
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-148b-3p ; hsa-mir-9-5p ; hsa-mir-124-3p ; hsa-mir-26b-5p ; hsa-let-7b-5p
Nearest miRNA
hsa-mir-10398/Upstream/1073833; hsa-mir-1202/Downstream/2676751;
Nearest TSS
ENST00000381078/Upstream/8245; ENST00000412161/Downstream/2854;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/367973, chr6-CpG: 26/Downstream/125535
Upstream sequence
TTGGAGCTGTATTTTGTTCTCTTGAGCAATAGCAATTTCCTCTTGATAATCCTGTGTAATAAATAGCAATCACAGAGGTCAGAAAGCATATTCTTAATAC
Downstream sequence
ATCCAGCCCAGCTCTACTAGAAACATGATGATTACTGCTTTCTACTGCTTGGAAGTAGTTTGAGCATAGGAATACCATGTGGATATCAGCCCATGTGCAC
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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