Basic Information
VIS ID
TVIS30000839
Fusion event
HIV-LRRFIP1 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr2
Cytoband
q37.3
Reference genome
GRCh37/hg19
Start
238679610/237770967 (Hg38)
End
238679610/237770967 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2J
Target gene
LRRFIP1
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-30a-5p ; hsa-mir-215-5p ; hsa-mir-34a-5p ; hsa-mir-192-5p ; hsa-mir-877-3p ; hsa-mir-877-5p ; hsa-mir-186-5p ; hsa-mir-149-5p ; hsa-mir-218-5p ; hsa-mir-7152-5p ; hsa-mir-3074-5p ; hsa-mir-6868-3p ; hsa-mir-6780a-3p ; hsa-mir-6881-3p ; hsa-mir-7111-3p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-3124-3p ; hsa-mir-130b-5p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-1266-3p ; hsa-mir-4267
Nearest miRNA
hsa-mir-10b/Upstream/259979; hsa-mir-149/Downstream/1297850;
Nearest TSS
ENST00000437798/Upstream/1235; ENST00000464608/Downstream/977;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/35501, chr2-CpG: 88/Downstream/27398
Upstream sequence
CCACTTTCCTCTAATTTCTCCTCATAAGCCTAATCAAATGTATTTGCCTTACTTCCTACCATTCTGTTGAAGATTCTCCGAAAATTGGAGAAAGCACTAA
Downstream sequence
ATATGGTAGGAAGATTCTCTTGAAGTTCCTGTGATCTTTTGAAACTGCATTCCTGAGTTCTATCCTTACTTCCTTAAAGCAGCATGCACTTTTGGTTTGT
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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