Basic Information
VIS ID
TVIS30012056
Fusion event
HIV-SRRM2 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
chr16
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
2810583/2760582 (Hg38)
End
2810583/2760582 (Hg38)
Orient
-
Location type
Intronic
Target gene
SRRM2
miRNAs that regulate target gene
hsa-mir-34a-5p ; hsa-mir-26b-5p ; hsa-mir-877-5p ; hsa-mir-744-5p ; hsa-mir-455-3p ; hsa-mir-505-5p ; hsa-mir-769-3p ; hsa-mir-769-5p ; hsa-mir-615-3p ; hsa-mir-18a-3p ; hsa-mir-504-5p ; hsa-mir-324-3p ; hsa-mir-331-3p ; hsa-mir-320a ; hsa-mir-186-5p ; hsa-mir-125b-5p ; hsa-mir-222-3p ; hsa-mir-181b-5p ; hsa-mir-31-5p ; hsa-mir-25-3p
Nearest miRNA
hsa-mir-1225/Upstream/228577; hsa-mir-11401/Downstream/724799;
Nearest TSS
ENST00000527434/Upstream/549; ENST00000576674/Downstream/3285;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/4004, chr16-CpG: 24/Downstream/1683
Upstream sequence
ATAAAGACAAGAAGGAGGTATGTTCCTGAGTTGGTGATGTTCATTGGATTGCAAATGTATAGATTTAGGATAGACATGTGATGTGAAAGGGAGAGGTAAT
Downstream sequence
AACTTATTAAAATAAATAAATTCAGTTTTTTTTCCTGCATTTCTCTCCTAGTTCTCTTACTGCATCTGCAGAACTTTTAGTGTTGTTACTAGACTGAATT
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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