Basic Information
VIS ID
TVIS30003535
Fusion event
HIV-ARHGEF3 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
p14.3
Reference genome
GRCh37/hg19
Start
56770733/56736705 (Hg38)
End
56770733/56736705 (Hg38)
Orient
-
Location type
Intronic
Target gene
ARHGEF3
miRNAs that regulate target gene
hsa-mir-138-5p ; hsa-mir-373-3p ; hsa-mir-335-5p ; hsa-mir-769-5p ; hsa-mir-377-5p ; hsa-mir-485-5p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-889-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p
Nearest miRNA
hsa-let-7g/Upstream/884111; hsa-mir-12124/Downstream/3881100;
Nearest TSS
ENST00000440867/Upstream/53468; ENST00000495939/Downstream/38862;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/53075, chr3-CpG: 57/Downstream/64917
Upstream sequence
atgttaactgttctgcatttgtttctcaaagccaagatcagacaaaataaatagctggcaaccctatgttggtttccaaaattctttctgaataggtact
Downstream sequence
gatccttaacattacaaaaTATGAATGAATATATATATACATATACACATATGATCCTGTGATATAAATGACACTGGAAAAGCAATTTTTGTTTGAAAGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate