Basic Information
VIS ID
TVIS30010722
Fusion event
HIV-VAPB 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
chr20
Cytoband
q13.32
Reference genome
GRCh37/hg19
Start
56978821/58403765 (Hg38)
End
56978821/58403765 (Hg38)
Orient
-
Location type
Intronic
Target gene
VAPB
miRNAs that regulate target gene
hsa-mir-877-3p ; hsa-mir-484 ; hsa-mir-339-5p ; hsa-mir-331-3p ; hsa-mir-342-3p ; hsa-mir-22-3p ; hsa-mir-3591-5p ; hsa-mir-142-3p ; hsa-mir-138-1-3p ; hsa-mir-648 ; hsa-mir-5571-5p ; hsa-mir-3941 ; hsa-mir-4424 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-551b-5p ; hsa-mir-4797-5p ; hsa-mir-8485 ; hsa-mir-518f-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/1082174; hsa-mir-1-1/Downstream/413850;
Nearest TSS
ENST00000382410/Upstream/14390; ENST00000463370/Downstream/27268;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/14017, chr20-CpG: 23/Downstream/57482
Upstream sequence
ctgtatgttgtctcattaataatgccttcatcttccacttctgcacagaaaacttccaaatctctatctccaagcaaatcttttgatctgtcagcctgct
Downstream sequence
ggacatccctgtctatctggttgtcatgagaacacctcaaactcagcatgttccacactgtatttaccgtttaccttctcatccccactgactgtggctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate