Basic Information
VIS ID
TVIS30011300
Fusion event
HIV-LINC01138 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
q21.2
Reference genome
GRCh37/hg19
Start
143732432/148447831 (Hg38)
End
143732432/148447831 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA1F
Target gene
LINC01138
Nearest miRNA
hsa-mir-101-1/Upstream/59468; hsa-mir-1182/Downstream/2044514;
Nearest TSS
ENST00000473358/Upstream/89145; ENST00000322209/Downstream/35848;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/45138, chr1-CpG: 125/Downstream/10965
Upstream sequence
gcgtagTTTTTTTATTAGAAATTGTTATTCAATAATAGTACATGTTACAAATAAATACCATTTTAAACTGAAAAAATTGTAGACTTTCAAATCAGTTAGG
Downstream sequence
GTGGTCACCCTAAAAAAGGGCATTTTTTTCCCGTTAGTCTCCTTGTTCATGTTGCTCACAACAAGAAATGGGCTCATGCTATGAATAATAATAACAAACA
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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