Basic Information
VIS ID
TVIS30010490
Fusion event
HIV-SLFN5 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
chr17
Cytoband
q12
Reference genome
GRCh37/hg19
Start
33574486/35247467 (Hg38)
End
33574486/35247467 (Hg38)
Orient
-
Location type
Intronic
Target gene
SLFN5
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-3613-3p ; hsa-mir-127-5p ; hsa-mir-7843-3p ; hsa-mir-4635 ; hsa-mir-100-3p ; hsa-mir-4783-5p ; hsa-mir-6767-3p ; hsa-mir-8485 ; hsa-mir-627-5p ; hsa-mir-924 ; hsa-mir-4682 ; hsa-mir-4653-5p ; hsa-mir-3921 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-146a-3p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-4286 ; hsa-mir-6777-3p ; hsa-mir-4639-3p ; hsa-mir-6771-3p ; hsa-mir-1178-3p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-6847-3p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-3121-5p ; hsa-mir-153-5p ; hsa-mir-1250-3p
Nearest miRNA
hsa-mir-1180/Upstream/2897265; hsa-mir-10226/Downstream/1786278;
Nearest TSS
ENST00000595228/Upstream/4378; ENST00000591886/Downstream/66035;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/3959, chr17-CpG: 23/Downstream/126001
Upstream sequence
aataaacagcctctgcttgttctcatccaggcagacttcattaatgtcTTTAgtttccttgcaggttccaccaaggtaccatctgcccactgtgtggact
Downstream sequence
cccattttcaaacaggatggctgctacagaggcaccttgcaccttgcagagagtggtttgttgagtttgcactgataggataagtcagcactgactgaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate