Basic Information
VIS ID
TVIS30015448
Fusion event
HIV-NF1 integration
Validated
Yes
Detection method
LM PCR
Data source
Curated
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Good
Reported year
2014
PubMed ID
24968937
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr17
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
29580861/31253843 (Hg38)
End
29580995/31253843 (Hg38)
Orient
+
Location type
Intronic
Target gene
NF1
miRNAs that regulate target gene
hsa-mir-10b-5p ; hsa-mir-370-3p ; hsa-mir-20a-3p ; hsa-mir-193b-3p ; hsa-let-7e-5p ; hsa-mir-9-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-193a-3p ; hsa-mir-374a-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-107 ; hsa-mir-514a-5p
Nearest miRNA
hsa-mir-1180/Upstream/159418; hsa-mir-10226/Downstream/281040;
Nearest TSS
ENST00000595228/Upstream/20813; ENST00000581113/Downstream/19779;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/158383, chr17-CpG: 29/Downstream/91474
Nearby gene
NF1(No orient, 31079)
Nearest cancer related gene
NF1(TSG, No orient, 0)
Upstream sequence
TCCAGTGAATGGAATTTGTCCAAAATATAATATGCATTCATTTTACATTTGCCATTATCTGTCACAGTGACTTATCAGGCTGAGCCCTGTCTTTGTTCAT
Downstream sequence
CTTTATggctgggcacagtggctcatacctgtaatccgggcactttgggagaccaaggtgggagtatctcttgagcccaagagttaaagaccagcttggg
Target sequence
ATAATCCAAATGATTGTAGAGTAAGATGTAAAGAAAACTAAGTAGGTAGTTTTCTTAAAAGGGTGTAATTTAGAATACAGTGTTCATCTGGTTTCATCTTTCATGCCTTATCTAAACTTTACATATAATAAAAG
Reference
Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.
Curate