Basic Information
VIS ID
TVIS30002446
Fusion event
HIV-LINC02195 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
p12.1
Reference genome
GRCh37/hg19
Start
26598254/26586933 (Hg38)
End
26598254/26586933 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16E
Target gene
LINC02195
Nearest miRNA
hsa-mir-1225/Upstream/561623; hsa-mir-11401/Downstream/1804049;
Nearest TSS
ENST00000527434/Upstream/264421; ENST00000562900/Downstream/7880;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/893623, chr16-CpG: 34/Downstream/522757
Nearby gene
HS3ST4(No orient, 449245)
Upstream sequence
ATCCATAGTAATATTTTCTACCACTGCATCCGattcctttccactgtcacacttttgaccatttgaaattatacacatatttaaagttatggattgcttg
Downstream sequence
tctcttccccaagactgtaagttccatgaaggaaaccccatgtccattttattcaACAGGATATATCTGCACCTATCATTAAACACCTCCTTTTAATCTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate