Basic Information
VIS ID
TVIS30007057
Fusion event
HIV-SLFN11 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
33687496/35360477 (Hg38)
End
33687496/35360477 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLFN11
miRNAs that regulate target gene
hsa-mir-125a-5p ; hsa-mir-222-3p ; hsa-mir-4261 ; hsa-mir-873-5p ; hsa-mir-545-3p ; hsa-mir-506-5p ; hsa-mir-4496 ; hsa-mir-577 ; hsa-mir-3120-3p ; hsa-mir-7849-3p ; hsa-mir-513b-3p ; hsa-mir-1252-3p ; hsa-mir-3646 ; hsa-mir-3611 ; hsa-mir-6079 ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-6849-3p ; hsa-mir-4717-5p ; hsa-mir-4753-5p ; hsa-mir-6768-3p
Nearest miRNA
hsa-mir-1180/Upstream/3010275; hsa-mir-10226/Downstream/1673268;
Nearest TSS
ENST00000595228/Upstream/7346; ENST00000587076/Downstream/2515;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/116969, chr17-CpG: 23/Downstream/12991
Upstream sequence
AAAGAAAATTCATGTTATTCTGACGTGTTAATCTCTTCATACTGAAAGAGGCTCTATCAGTAGGTGGAATGTGTGACTTTCTAAATAGTTTGACTTGAGA
Downstream sequence
GATAATATCAAAATAACTCTCCTCTCACTCACTTACTCTAGATAAGTGCCTTTATTGCATATCAAGGTTGCCAAAACCCACCCTGAAAAGCCATTATTTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate