Basic Information
VIS ID
TVIS30012041
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
93534695/92991465 (Hg38)
End
93534695/92991465 (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/86990; hsa-mir-1302-10/Downstream/3341796;
Nearest TSS
ENST00000557528/Upstream/7006; ENST00000627185/Downstream/5489;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/86872, chr15-CpG: 34/Downstream/53407
Upstream sequence
CTATTTTTGACAATTTGCATGGCTCATATGTCATCACAGGATATGCTAGCATCAACATAACTAAAGTAAGTCTCTGTTTTTTTAATATGTTTTATTGATC
Downstream sequence
CTATTCTTAGGTTCATCAAGGCTTATAAGAAGTTTGGTCTCCCTCTTGAACGGTAAGTTCAGTGTAATAGTCCCTTATCTTCCTCTTTTTTGCTTTTATT
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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