Basic Information
VIS ID
TVIS30007592
Fusion event
HIV-TAF1B 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
chr2
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
9990489/9850360 (Hg38)
End
9990489/9850360 (Hg38)
Orient
-
Location type
Intronic
Target gene
TAF1B
miRNAs that regulate target gene
hsa-mir-580-3p ; hsa-mir-5189-3p ; hsa-mir-539-5p ; hsa-mir-651-5p ; hsa-mir-4266 ; hsa-mir-24-3p ; hsa-mir-564 ; hsa-mir-383-3p ; hsa-mir-4779 ; hsa-mir-4695-5p ; hsa-mir-5571-3p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-2276-3p ; hsa-mir-1304-3p ; hsa-mir-1281 ; hsa-mir-4485-5p ; hsa-mir-6890-3p ; hsa-mir-154-5p ; hsa-mir-4638-5p ; hsa-mir-6741-3p
Nearest miRNA
hsa-mir-7158/Upstream/3199921; hsa-mir-10b/Downstream/342254;
Nearest TSS
ENST00000437798/Upstream/6637; ENST00000492648/Downstream/25638;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/6588, chr2-CpG: 184/Downstream/100418
Upstream sequence
CTTAAGGAACTTCAGGTGCTTTATATTAGGTGTTAAGTATCTTATAGtcaacctcatcacccttaatttcttcatttgtaaaatgagaataaaatgccAT
Downstream sequence
CCATTATGGAAAATAGGAACACAGACTCAAAATTTAAAATACAACTTTATCAGTTTCTAAGAACAGTATGCAGGAAGAGGGAGTATATGCATATAGCTTG
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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