Basic Information
VIS ID
TVIS30002721
Fusion event
HIV-RETREG3 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
chr17
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
40755161/42603143 (Hg38)
End
40755161/42603143 (Hg38)
Orient
+
Location type
Intronic
Target gene
RETREG3
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-30b-5p ; hsa-mir-30c-5p ; hsa-mir-31-5p ; hsa-mir-8074 ; hsa-mir-6802-5p ; hsa-mir-874-5p ; hsa-mir-210-5p ; hsa-mir-4696 ; hsa-mir-548ax ; hsa-mir-548ao-5p ; hsa-mir-6815-5p ; hsa-mir-6865-5p ; hsa-mir-6507-5p ; hsa-mir-1285-3p ; hsa-mir-196a-3p ; hsa-mir-3187-5p ; hsa-mir-4738-3p ; hsa-mir-5189-5p ; hsa-mir-548g-3p ; hsa-mir-612 ; hsa-mir-6512-3p ; hsa-mir-661 ; hsa-mir-6720-5p ; hsa-mir-6860 ; hsa-mir-766-3p ; hsa-mir-939-3p
Nearest miRNA
hsa-mir-1180/Upstream/88836; hsa-mir-10226/Downstream/104941;
Nearest TSS
ENST00000595228/Upstream/16186; ENST00000589613/Downstream/6181;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/25196, chr17-CpG: 56/Downstream/5898
Upstream sequence
atttttttttccccttttgtgaactgtcCCTCCACTCTGTCAGGGACTAAAATCCAATTAAATGATCAGTCTAAATAAAATATCCCTGGAATAGCAATTG
Downstream sequence
GTGTCCAGAAACATCGTGAGAAATTCCAGAACCAAACATAAACTTTTGTGATTAACTATACCATGGAGCCTCACTATTAGTACCAGTAAATTAAAGTTTG
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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