Basic Information
VIS ID
TVIS30004116
Fusion event
HIV-LINC00535 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
chr8
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
94486054/93473826 (Hg38)
End
94486054/93473826 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA8B
Target gene
LINC00535
Nearest miRNA
hsa-mir-12123/Upstream/443987; hsa-mir-10400/Downstream/442196;
Nearest TSS
ENST00000518652/Upstream/52946; ENST00000520955/Downstream/224735;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/507585, chr8-CpG: 100/Downstream/226312
Upstream sequence
ttaagtttgaggatcatccatgaagaggtatttggttaggttacattgatctagaactcaatagagagattatagctggaatgagagatttagaattcat
Downstream sequence
ctccctatgggggtaggtgagtgaatgatatcaccacagagtttctagaatatcaaatggggagggcagaggatggaatcccagggcaATGTTTTCCAGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate