Basic Information
VIS ID
TVIS30002010
Fusion event
HIV-ETV6 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
chr12
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
12013309/11860375 (Hg38)
End
12013309/11860375 (Hg38)
Orient
+
Location type
Intronic
Target gene
ETV6
miRNAs that regulate target gene
hsa-mir-129-5p ; hsa-mir-296-3p ; hsa-mir-99b-5p ; hsa-mir-92a-3p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-4712-3p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-3163 ; hsa-mir-1252-3p ; hsa-mir-3662 ; hsa-mir-574-5p ; hsa-mir-297 ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-511-3p ; hsa-mir-676-3p ; hsa-mir-135a-3p ; hsa-mir-4724-5p ; hsa-mir-6757-5p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-3157-5p ; hsa-mir-30a-3p ; hsa-mir-4691-3p ; hsa-mir-153-5p ; hsa-mir-4422 ; hsa-mir-548e-5p ; hsa-mir-335-3p ; hsa-mir-3667-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/2620824; hsa-let-7i/Downstream/251577;
Nearest TSS
ENST00000382841/Upstream/107874; ENST00000266427/Downstream/25562;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/210756, chr12-CpG: 102/Downstream/406370
Nearest cancer related gene
ETV6(TSG, No orient, 0)
Upstream sequence
TCAAGGAGGCTGTGGGCTGGGGTTTGACATCTTTGTTACACATATTAACCACGGAATACATGACAGAGCCAGAGAGCATGCCGGCACGTATATGCGTGCA
Downstream sequence
CTCTACATCCcccgactacctgggttctaatcccagctccccagtttaccggctgtgtgacttcaggcaactgccttgggtctcaggtctctacctgtaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate