Basic Information
VIS ID
TVIS30001777
Fusion event
HIV-VCL 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
chr10
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
75783298/74023540 (Hg38)
End
75783298/74023540 (Hg38)
Orient
+
Location type
Intronic
Target gene
VCL
miRNAs that regulate target gene
hsa-mir-661 ; hsa-mir-559 ; hsa-mir-34a-5p ; hsa-mir-320b ; hsa-mir-130b-5p ; hsa-mir-320a ; hsa-mir-125b-5p ; hsa-mir-222-3p ; hsa-mir-196a-5p ; hsa-mir-16-5p ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-8065 ; hsa-mir-656-5p ; hsa-mir-6799-5p ; hsa-mir-6722-3p ; hsa-mir-6836-5p ; hsa-mir-1909-3p ; hsa-mir-6132 ; hsa-mir-98-5p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-6754-5p ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-6504-3p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-1321 ; hsa-mir-4700-3p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-1265/Upstream/1302440; hsa-mir-107/Downstream/1528918;
Nearest TSS
ENST00000439456/Upstream/25424; ENST00000461383/Downstream/19551;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/25071, chr10-CpG: 50/Downstream/127538
Upstream sequence
gaatatatccctgtcattaagcaatgtatgactgTACTTAAAACAGTGACAAACTGGATAAACCAATGAACTCTCTAGTATACTGTAATTCTCTCAATTC
Downstream sequence
TGACTAATTCTGATTATTCCTTTTGCCTAACTGGGAATAAGTTATCTGAGATGGTATAGCCTAATTTACTAATGAGTTTGGTTGTCCGTGGCAACTGTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate