Basic Information
VIS ID
TVIS30002957
Fusion event
HIV-DNMT1 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
10283555/10172879 (Hg38)
End
10283555/10172879 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
DNMT1
miRNAs that regulate target gene
hsa-mir-148a-3p ; hsa-mir-29b-3p ; hsa-mir-152-3p ; hsa-mir-301b-3p ; hsa-mir-126-3p ; hsa-mir-342-3p ; hsa-mir-185-5p ; hsa-mir-140-5p ; hsa-mir-193b-3p ; hsa-mir-148b-3p ; hsa-mir-155-5p ; hsa-mir-877-3p ; hsa-mir-484 ; hsa-mir-149-5p ; hsa-mir-30b-5p ; hsa-mir-100-5p ; hsa-mir-26a-5p ; hsa-mir-1260b ; hsa-mir-200a-3p ; hsa-mir-200b-3p ; hsa-mir-429 ; hsa-mir-29a-3p ; hsa-mir-92a-3p ; hsa-mir-20a-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-18a-5p ; hsa-mir-17-5p ; hsa-let-7c-5p ; hsa-mir-218-5p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-217 ; hsa-mir-1264 ; hsa-mir-377-3p ; hsa-mir-1343-3p ; hsa-mir-548q ; hsa-mir-6782-5p ; hsa-mir-6783-3p
Nearest miRNA
hsa-mir-1227/Upstream/134466; hsa-let-7e/Downstream/57534;
Nearest TSS
ENST00000633603/Upstream/6208; ENST00000588963/Downstream/7502;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/30638, chr19-CpG: 89/Downstream/21411
Nearest cancer related gene
DNMT1(TSG, No orient, 0)
Upstream sequence
actcattccagcctgggtgacagagtgggagactgtctcaaaaataaataaataaataaaataaaataaaataTCACAAATAAGTAGCAAGGGTCCTCAC
Downstream sequence
TATCACAATCTCATAACCCACCTTTCATGTAGAGACCACGAGAAAACAAGTTTGAAAGGTGTTTAGCCAAAGTCAAAGGCATTTCGATCACTAGCAAAAC
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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