Basic Information
VIS ID
TVIS30002000
Fusion event
HIV-PARP11 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
chr12
Cytoband
p13.32
Reference genome
GRCh37/hg19
Start
3976755/3867589 (Hg38)
End
3976755/3867589 (Hg38)
Orient
-
Location type
Intronic
Target gene
PARP11
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-122-5p ; hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-mir-1273e ; hsa-mir-7847-3p ; hsa-mir-6880-5p ; hsa-mir-6799-5p ; hsa-mir-31-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-6134 ; hsa-mir-1827 ; hsa-mir-219b-3p ; hsa-mir-1247-3p ; hsa-mir-3123 ; hsa-mir-302f ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-765 ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-4779 ; hsa-mir-374a-3p ; hsa-mir-421 ; hsa-mir-4709-5p ; hsa-mir-136-3p ; hsa-mir-212-3p ; hsa-mir-132-3p
Nearest miRNA
hsa-mir-3649/Upstream/2207209; hsa-let-7i/Downstream/3096110;
Nearest TSS
ENST00000382841/Upstream/45615; ENST00000545163/Downstream/4145;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/28135, chr12-CpG: 38/Downstream/5491
Upstream sequence
cttaagtggagtatagcagagatatatctagaattttaaatagcgtgaacctactacttcagggccaaaataccctgatttttaatgctgagaataaaat
Downstream sequence
accatatttttcaaagtcaccaagctatgttgcaaatggctcaattgctaggatgtgattccttcccaaaacctgatggttttcttcacttcttagagtg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate