Basic Information
VIS ID
TVIS30010953
Fusion event
HIV-PM20D2 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
chr6
Cytoband
q15
Reference genome
GRCh37/hg19
Start
89868296/89158577 (Hg38)
End
89868296/89158577 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6G
Target gene
PM20D2
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-21-5p ; hsa-mir-5096 ; hsa-mir-8061 ; hsa-mir-629-3p ; hsa-mir-4760-5p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-889-3p ; hsa-mir-202-3p ; hsa-mir-98-5p ; hsa-mir-4458 ; hsa-mir-4500 ; 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-4307 ; hsa-mir-5583-3p ; hsa-mir-4517 ; hsa-mir-6792-5p ; hsa-mir-1273e ; hsa-mir-190b ; hsa-mir-5585-5p ; hsa-mir-190a-5p ; hsa-mir-548ax ; hsa-mir-548ao-5p ; hsa-mir-380-3p ; hsa-mir-411-3p ; hsa-mir-4495 ; hsa-mir-379-3p ; hsa-mir-548s ; hsa-mir-4684-5p ; hsa-mir-3926 ; hsa-mir-4786-5p ; hsa-mir-203a-3p ; hsa-mir-3190-5p ; hsa-mir-6827-3p ; hsa-mir-340-3p
Nearest miRNA
hsa-mir-10398/Upstream/10619268; hsa-mir-1202/Downstream/1154165;
Nearest TSS
ENST00000381078/Upstream/12527; ENST00000520458/Downstream/58684;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/11758, chr6-CpG: 109/Downstream/193744
Upstream sequence
TATATATTGAGCTATTTGAGGAAGAGAAATACCATCTTTGGTTAAATTGGTTGTATTTAATGGTTTGGGAGGTCGGGAGGTACTACTGACGTTTTTAATA
Downstream sequence
TTTTCACAAACTTTATGGTTAGGGGAAAGAAACTAATGGACTCTTAAGTGAGTGTAGAATGTCAAACGAGCAGACTTGATTTTAGAAATAGTCAACCTAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate