Basic Information
VIS ID
TVIS30013461
Fusion event
HIV-BEND3 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
107429257/107108053 (Hg38)
End
107429257/107108053 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
BEND3
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-484 ; hsa-mir-186-5p ; hsa-mir-7852-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-4662a-5p ; hsa-mir-4252 ; hsa-mir-449b-3p ; hsa-mir-942-3p
Nearest miRNA
hsa-mir-10398/Upstream/323833; hsa-mir-1202/Downstream/11960994;
Nearest TSS
ENST00000381078/Upstream/68061; ENST00000618129/Downstream/6379;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/37690, chr6-CpG: 245/Downstream/6197
Upstream sequence
TCTGGGTTCACAGGACCGGCTGGGAGCCTCAAGGGTCTCAGGACCCAGCCCCCTTGGCAGTGGCATCCTGCCCAAGGGACTTGCAGGACATGTTCGCAAT
Downstream sequence
TTGTTTTTATTTTTAGGCACATCTGCAAATGCAGTTTGAAAAATACCAGTCCTCACAAAACCAGGGCAATTTTCCCCAGAGTTTTTCTAAAGCTGTAATT
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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