Basic Information
VIS ID
TVIS30003467
Fusion event
HIV-ANKRD28 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
chr3
Cytoband
p25.1
Reference genome
GRCh37/hg19
Start
15758810/15717303 (Hg38)
End
15758810/15717303 (Hg38)
Orient
-
Location type
Intronic
Target gene
ANKRD28
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-21-5p ; hsa-mir-221-3p ; hsa-mir-130b-5p ; hsa-mir-3180-5p ; hsa-mir-513b-5p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-561-3p ; hsa-mir-548at-5p ; hsa-mir-5195-3p ; hsa-mir-145-5p ; hsa-mir-6885-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-942-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-3617-3p ; hsa-mir-3074-3p ; hsa-mir-3614-3p
Nearest miRNA
hsa-mir-12127/Upstream/19932; hsa-let-7g/Downstream/156468;
Nearest TSS
ENST00000440867/Upstream/21072; ENST00000470031/Downstream/3819;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/115229, chr3-CpG: 142/Downstream/141687
Upstream sequence
ctggctcaagtgattccctcacctcagccttccgaaggtagctgggactaaaggcacacacaactgggcctggTTAGAATCCTTTATTATAAGCCTATAT
Downstream sequence
GTGGCACTGGATCAACATTTTTACTTTCTACATACTGATAATAAAACCTATTCTAAGTATACAAAGGAAAAAGAGATTCAGATTACTAACTAAAAAGTTT
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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