Basic Information
VIS ID
TVIS30009203
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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr6
Cytoband
q25.2
Reference genome
GRCh37/hg19
Start
152652712/152331577 (Hg38)
End
152652712/152331577 (Hg38)
Orient
-
Location type
Exonic
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/1228801; hsa-mir-1202/Downstream/2521783;
Nearest TSS
ENST00000381078/Upstream/13233; ENST00000412161/Downstream/2570;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/29232, chr6-CpG: 64/Downstream/305098
Upstream sequence
ATTTCAGGAGCATCTGCTTGGCCTCCAGTTCACTGCAGATGGCCAGGTGATCCATGAGAAGGTTCTGAGCCATATCTGGAGGAGGGCTCTGCTTAAGGGC
Downstream sequence
CTCGGCGATGTTGGGTTGTTGCTCTTCTGCCCACTCCATTAGCTCCTGAAATCTGGACTGCACCACATTTAACTCCTCCAAGTTGGTGACTGACACTTGG
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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