Basic Information
VIS ID
TVIS30012050
Fusion event
HIV-LMF1-AS1 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
981849/931849 (Hg38)
End
981849/931849 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LMF1-AS1
Nearest miRNA
hsa-mir-3176/Upstream/161572; hsa-mir-11401/Downstream/803136;
Nearest TSS
ENST00000527434/Upstream/10776; ENST00000566034/Downstream/15795;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/1651, chr16-CpG: 36/Downstream/24053
Upstream sequence
CTTCTGAATTTCTGCGCGACAGTCCAAAGTGACGTGCTGAGCCGCTGCAGGGTCAGACACAACATGAAACTCAGGCTCACGAGGGCTCTCAGGCGGAAAA
Downstream sequence
CATTAACATTAATGAGTCAACAATTCGCTTCTGAGTCCCTACAATTACCACCTGCTACCGAAGAATCAGTTAGAATGTATGACGCTCACCTGAAAACACC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate