Basic Information
VIS ID
TVIS30002139
Fusion event
HIV-NBEA 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
35952251/35378114 (Hg38)
End
35952251/35378114 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13A
Target gene
NBEA
miRNAs that regulate target gene
hsa-mir-548b-3p ; hsa-mir-335-5p ; hsa-mir-9-5p ; hsa-mir-128-3p ; hsa-mir-21-5p ; hsa-mir-935 ; hsa-mir-18a-5p ; hsa-mir-377-3p ; hsa-mir-485-3p ; hsa-mir-127-3p ; hsa-mir-409-5p
Nearest miRNA
hsa-mir-2276/Upstream/11215610; hsa-mir-1267/Downstream/4285920;
Nearest TSS
ENST00000623511/Upstream/308162; ENST00000537702/Downstream/98635;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/434824, chr13-CpG: 54/Downstream/92593
Upstream sequence
CAAATAAATTATAGTTATTCTGATTACAATATAGCTTTAGGAATGGAAGAACAAAATAAAATGTTATCATCAAATATTACTGTCTTGGGGAGAAACAGGA
Downstream sequence
ATACTTACGTGTATGTATGTGTTTGTGTGTATCCAGGAATAGGCCCATAGAAATAAAGTCTGTTTTTGCTTCATTCTTCCTCACATTTCAAATATCTTTG
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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