Basic Information
VIS ID
TVIS30012040
Fusion event
HIV-CHD2 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
chr15
Cytoband
q26.1
Reference genome
GRCh37/hg19
Start
93486008/92942778 (Hg38)
End
93486008/92942778 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHD2
miRNAs that regulate target gene
hsa-mir-450a-5p ; hsa-mir-196b-5p ; hsa-mir-378a-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-10393/Upstream/38303; hsa-mir-1302-10/Downstream/3390483;
Nearest TSS
ENST00000557528/Upstream/3122; ENST00000625243/Downstream/162;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/38185, chr15-CpG: 34/Downstream/102094
Upstream sequence
TGATTGAGTCCGTTCTGTGTTGTTTGTGAGTTTGTACTTATTTCAAGTTGAAGTATTTTGGTGCTTCATCCACAAAGGGAGTCTTCAGATAATTGCATTC
Downstream sequence
TTGGGAAGCTTTTTAATATCTGGTGTAATATACTCTCTTTCAAGTGTACTTAATCCTTTTGCAGCCACTGGAGCATCTACTACTGTATATGCGATTGAAG
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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