Basic Information
VIS ID
TVIS30007316
Fusion event
HIV-RPRD1A 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
chr18
Cytoband
q12.2
Reference genome
GRCh37/hg19
Start
33623925/36043962 (Hg38)
End
33623925/36043962 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA18A
Target gene
RPRD1A
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-30a-5p ; hsa-mir-181b-5p ; hsa-mir-10a-5p ; hsa-mir-20a-5p ; hsa-mir-140-3p ; hsa-mir-1911-5p ; hsa-mir-4461 ; hsa-mir-4804-3p ; hsa-mir-6869-5p
Nearest miRNA
hsa-mir-1-2/Upstream/109820; hsa-mir-122/Downstream/1613173;
Nearest TSS
ENST00000575820/Upstream/13112; ENST00000541190/Downstream/20462;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/70973, chr18-CpG: 65/Downstream/23140
Upstream sequence
aggggtccaacgccctgtgcagtaaaaaacccatgtataacttctgactcccaaaaaacttaactactaacagactatcactgagcagaaactttactga
Downstream sequence
taacataaataacacatattttgtatgttatataaactatatactgtattctgacactaaagtaagctagagaaaagaaaatgttaagaaaatcatagaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate