Basic Information
VIS ID
TVIS30010706
Fusion event
HIV-CBFA2T2 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
chr20
Cytoband
q11.22
Reference genome
GRCh37/hg19
Start
32199456/33611650 (Hg38)
End
32199456/33611650 (Hg38)
Orient
-
Location type
Intronic
Target gene
CBFA2T2
miRNAs that regulate target gene
hsa-mir-101-3p ; hsa-mir-106b-5p ; hsa-mir-92a-3p ; hsa-mir-7977 ; hsa-mir-7160-5p ; hsa-mir-5690 ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-1273g-3p ; hsa-mir-1910-3p ; hsa-mir-2467-3p ; hsa-mir-3202 ; hsa-mir-3714 ; hsa-mir-377-5p ; hsa-mir-4252 ; hsa-mir-4257 ; hsa-mir-4533 ; hsa-mir-455-3p ; hsa-mir-490-3p ; hsa-mir-5694 ; hsa-mir-605-3p ; hsa-mir-6086 ; hsa-mir-619-3p ; hsa-mir-6499-3p ; hsa-mir-6511a-5p ; hsa-mir-6516-5p ; hsa-mir-6807-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/1373803; hsa-mir-1-1/Downstream/437469;
Nearest TSS
ENST00000382410/Upstream/11314; ENST00000491618/Downstream/7915;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/120987, chr20-CpG: 17/Downstream/32714
Upstream sequence
tgtcacccagcctggagtatgatggtgcgaacacagctcacttcagccttgaccttccaggtttaagcagttctcttgctgcatcctcctgagtagttgg
Downstream sequence
gactacatgtgcatgccgccatgcccagctaatttttttattttggtagagatgggatctctctatcttgttcaggctgctttcaaactcctagcctcaa
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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