Basic Information
VIS ID
TVIS30009980
Fusion event
HIV-LRCH2 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
chrX
Cytoband
q23
Reference genome
GRCh37/hg19
Start
114440272/115205709 (Hg38)
End
114440272/115205709 (Hg38)
Orient
-
Location type
Intronic
Target gene
LRCH2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-101-3p ; hsa-mir-5587-5p ; hsa-mir-580-5p
Nearest miRNA
hsa-let-7f-2/Upstream/382145; hsa-mir-105-1/Downstream/3180685;
Nearest TSS
ENST00000429181/Upstream/16282; ENST00000371921/Downstream/28363;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/13077, chrX-CpG: 31/Downstream/27823
Upstream sequence
tttgtaaacctaaaacttctgaaaaataaCATATGAAATAAAAAGTCAgctgggcatggtggctcacgcctgtaatcccagcactttgggaggccgaggc
Downstream sequence
aggtgaatcacaaggtcaagaaatcgagaccatcctggccaacatggtgaaaccctgtctctattaaaaatacaaaaaattagccaggcatagtggcaag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate