Basic Information
VIS ID
TVIS30005484
Fusion event
HIV-LPGAT1 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
chr1
Cytoband
q32.3
Reference genome
GRCh37/hg19
Start
211949073/211775731 (Hg38)
End
211949073/211775731 (Hg38)
Orient
+
Location type
Intronic
Target gene
LPGAT1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-155-5p ; hsa-mir-181a-5p ; hsa-mir-21-5p ; hsa-mir-19b-3p ; hsa-let-7b-5p ; hsa-mir-193b-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-5089-5p ; hsa-mir-4794 ; hsa-mir-664a-5p ; hsa-mir-6871-5p ; hsa-mir-8076 ; hsa-mir-892b ; hsa-mir-6885-3p ; hsa-mir-3689f ; hsa-mir-3689e ; hsa-mir-3689b-5p ; hsa-mir-3689a-5p ; hsa-mir-4720-3p ; hsa-mir-4804-3p ; hsa-mir-4501 ; hsa-mir-5586-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-101-1/Upstream/2152221; hsa-mir-1182/Downstream/301882;
Nearest TSS
ENST00000473358/Upstream/50329; ENST00000429499/Downstream/17595;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/99897, chr1-CpG: 128/Downstream/54358
Upstream sequence
TTAGAATTGTTTCATggccgggcgcagtggctcatgcctgtaatcccagcactttgggaggccgaagtgggtggatcacctgaggtcgggagttcgagac
Downstream sequence
cagccttaccaacatggagaaactccatctctactaaaaatacaaaattagccgggcatggtggtgcatgcctactgtaatcccagctactcaggaggct
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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