Basic Information
VIS ID
TVIS30000628
Fusion event
HIV-SNRNP70 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
chr19
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
49590168/49086911 (Hg38)
End
49590168/49086911 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
SNRNP70
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-615-3p ; hsa-mir-92b-3p ; hsa-mir-193b-3p ; hsa-mir-331-3p ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-10395/Upstream/76939; hsa-let-7e/Downstream/221886;
Nearest TSS
ENST00000633603/Upstream/387; ENST00000544278/Downstream/15500;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/1088, chr19-CpG: 31/Downstream/21004
Upstream sequence
gtgctttgtgattgtgccactatactccggcctgggtgacagagcaggacttcgtctctcaaaaaaaaaaTTTTTTTTTTAAGTGGGGTTGTggcccggt
Downstream sequence
acggtggctcacgcctgtaatcccagtactttgggagaccgaggcaggcggatcacttgaggtgaggagttgaagaccagcctggccaacatggtgaaac
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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