Basic Information
VIS ID
TVIS30011744
Fusion event
HIV-R3HDM2 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
chr12
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
57713775/57319992 (Hg38)
End
57713775/57319992 (Hg38)
Orient
+
Location type
Intronic
Target gene
R3HDM2
miRNAs that regulate target gene
hsa-mir-671-5p ; hsa-mir-125b-5p ; hsa-let-7c-5p ; hsa-mir-6895-5p ; hsa-mir-1972 ; hsa-mir-6079 ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6828-5p ; hsa-mir-4755-3p ; hsa-mir-4786-3p ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-5693 ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-3681-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-5582-5p ; hsa-mir-1299 ; hsa-mir-3202 ; hsa-mir-4493 ; hsa-mir-4533 ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-518c-5p ; hsa-mir-383-3p ; hsa-mir-514a-5p ; hsa-mir-4753-5p
Nearest miRNA
hsa-mir-1228/Upstream/125416; hsa-let-7i/Downstream/192696;
Nearest TSS
ENST00000382841/Upstream/9529; ENST00000547552/Downstream/21490;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/76102, chr12-CpG: 99/Downstream/155300
Nearby gene
R3HDM2(No orient, 9529)
Upstream sequence
TCGTTACTCTTGGGGCATAAAGATTCCTGGAAACAATTTTTTCTGGGCCAAAACAAAAGCAAAAGAAAGCAACCAACTAAAAAAAGCCTTAggctgggcg
Downstream sequence
tagtggctcacgcctgcaatcccaccactttgggaggcgggcggatcactgaggtcaggagtttgagatgagcctggccaacacggtgaaaccccgtttc
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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