Basic Information
VIS ID
TVIS30005274
Fusion event
HIV-LPAR3 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
chr1
Cytoband
p22.3
Reference genome
GRCh37/hg19
Start
85331915/84866232 (Hg38)
End
85331915/84866232 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
LPAR3
miRNAs that regulate target gene
hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-8485 ; hsa-mir-448 ; hsa-mir-4789-5p ; hsa-mir-4643 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-101-1/Upstream/7806030; hsa-mir-11399/Downstream/267562;
Nearest TSS
ENST00000473358/Upstream/73; ENST00000528899/Downstream/26981;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/111577, chr1-CpG: 89/Downstream/26444
Upstream sequence
AACATCCTAGAAAGAAATTTAAAGAAGAAACAAATATCATTTGTAAAATCAGTCACTAAGCCATCAATTGCTGTTTCTAAGCCCGTTCTGGCTAACTCCC
Downstream sequence
ATCAAGGGAGTTGAAGACCTGAAGTGtcaggtctcagtgcaaatgtcctttggtccaggacatagcccctgacctcctaCCACAGCATTTAGCGCACATT
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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