Basic Information
VIS ID
TVIS30008965
Fusion event
HIV-PRPF4B 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
p25.2
Reference genome
GRCh37/hg19
Start
4043037/4042803 (Hg38)
End
4043037/4042803 (Hg38)
Orient
-
Location type
Intronic
Target gene
PRPF4B
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-371a-5p ; hsa-mir-7843-3p ; hsa-mir-4665-5p ; hsa-mir-5010-5p ; hsa-mir-1275 ; hsa-mir-4525 ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-625-5p ; hsa-mir-6825-5p ; hsa-mir-6883-5p ; hsa-mir-3175 ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-873-5p ; hsa-mir-1827 ; hsa-mir-637 ; hsa-mir-940 ; hsa-mir-6808-5p ; hsa-mir-6893-5p ; hsa-mir-5585-3p ; hsa-mir-606 ; hsa-mir-616-3p ; hsa-mir-4786-3p ; hsa-mir-4729 ; hsa-mir-4528 ; hsa-mir-4762-3p ; hsa-mir-3192-3p ; hsa-mir-4502
Nearest miRNA
hsa-mir-4645/Upstream/1188696; hsa-mir-10398/Downstream/1105430;
Nearest TSS
ENST00000381078/Upstream/1954; ENST00000466185/Downstream/7715;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/21033, chr6-CpG: 87/Downstream/36015
Upstream sequence
AAAAAATGATCTTTTTTTAGTTACTAAAACTGAGATGGTTGCTCTTTGTTGGTTATACATAGAATTCTGGTTGTTTATACATAGAATTCTGATGTAAACC
Downstream sequence
TCTTCTGTAAAACATGAGAATCTGAAGTTTGCTTTCTTTTTAAGTTAATGAACACGTATGAGTATAGAATAAACTGGAGGAATTTTATTTAGCAAAAAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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