Basic Information
VIS ID
TVIS30003491
Fusion event
HIV-SNRK 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
chr3
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
43353797/43312305 (Hg38)
End
43353797/43312305 (Hg38)
Orient
-
Location type
Intronic
Target gene
SNRK
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-21-5p ; hsa-mir-193b-3p ; hsa-mir-192-3p ; hsa-mir-365a-3p ; hsa-mir-365b-3p ; hsa-mir-938 ; hsa-mir-3065-5p ; hsa-mir-4772-3p ; hsa-mir-6886-3p ; hsa-mir-942-5p ; hsa-mir-4768-5p ; hsa-mir-6833-3p ; hsa-mir-340-5p ; hsa-mir-4789-5p ; hsa-mir-4789-3p ; hsa-mir-5011-5p ; hsa-mir-137 ; hsa-mir-6873-3p ; hsa-mir-6845-3p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-944 ; hsa-mir-6809-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-1251-5p ; hsa-mir-517-5p ; hsa-mir-153-5p ; hsa-mir-154-5p ; hsa-mir-4422
Nearest miRNA
hsa-mir-12127/Upstream/4174039; hsa-let-7g/Downstream/801907;
Nearest TSS
ENST00000440867/Upstream/9193; ENST00000484791/Downstream/19861;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/25591, chr3-CpG: 18/Downstream/51622
Upstream sequence
ATGAAAGCTGAATTACTTGAAACATGGCTCCATATGGATACAGTGCAAATGTTTGGATTTAGATTAAGTCTTGAATATAAACAAAAAGCCTATATACACT
Downstream sequence
CTCTACAACATTTCTCATTTGCAGTTCAGCATTTAATGGAAATTGTTTAGAGTCATGGGGTGTGTCCTCACACATATTGGTGTGTAAAAAACTAGACATC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate