Basic Information
VIS ID
TVIS30007608
Fusion event
HIV-DNMT3A 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
chr2
Cytoband
p23.3
Reference genome
GRCh37/hg19
Start
25541364/25318495 (Hg38)
End
25541364/25318495 (Hg38)
Orient
-
Location type
Intronic
Target gene
DNMT3A
miRNAs that regulate target gene
hsa-mir-143-3p ; hsa-mir-29a-3p ; hsa-mir-29c-3p ; hsa-mir-29b-3p ; hsa-mir-194-5p ; hsa-mir-369-5p ; hsa-mir-101-3p ; hsa-mir-193b-3p ; hsa-mir-18a-3p ; hsa-mir-200b-3p ; hsa-mir-200c-3p ; hsa-mir-539-5p ; hsa-mir-7152-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-2116-3p ; hsa-mir-6887-3p ; hsa-mir-4528 ; hsa-mir-6729-3p ; hsa-mir-340-5p ; hsa-mir-29c-5p ; hsa-mir-2276-3p ; hsa-mir-328-5p ; hsa-mir-4708-3p ; hsa-mir-6508-3p ; hsa-mir-6762-5p ; hsa-mir-6845-5p ; hsa-mir-6846-3p ; hsa-mir-6859-3p ; hsa-mir-6885-5p
Nearest miRNA
hsa-mir-3125/Upstream/5969990; hsa-mir-10b/Downstream/10145;
Nearest TSS
ENST00000437798/Upstream/66184; ENST00000352271/Downstream/23390;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/40935, chr2-CpG: 241/Downstream/21945
Nearest cancer related gene
DNMT3A(TSG, No orient, 0)
Upstream sequence
catttctcagcctcccgagtagctgggaccacaggcgcccgtcaccactcccggctaattcttgtatttttagtagagacagctttcgccatgttggcca
Downstream sequence
ggctggtcttgaactcctgacctcaagtgatccacccaccttggcctcccaaagtgctggaattacaggtgtgagccaccgtgcccagccAAAATTCTTA
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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