Basic Information
VIS ID
TVIS30012742
Fusion event
HIV-RAB3GAP1 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
chr2
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
135904528/135146958 (Hg38)
End
135904528/135146958 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2F
Target gene
RAB3GAP1
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-4677-5p ; hsa-mir-3672 ; hsa-mir-6864-3p ; hsa-mir-526b-5p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-5582-5p ; hsa-mir-124-3p ; hsa-mir-186-5p ; hsa-mir-377-3p ; hsa-mir-190a-3p ; hsa-mir-656-3p ; hsa-mir-5011-5p ; hsa-mir-4789-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-1285-2/Upstream/289085; hsa-mir-10b/Downstream/518439;
Nearest TSS
ENST00000437798/Upstream/22878; ENST00000497080/Downstream/21590;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/94270, chr2-CpG: 36/Downstream/384442
Upstream sequence
tgtttatccattcactcttgataaacattCcaaaaataatgggcataaggaaatttctgaggtgatgaatacattcagtatgttgattatgtgattattt
Downstream sequence
caagggggtatAAacacacacacacacacacacacacacacGAAAATTTATCAAATGTGCCTTTAAATTATTGTATGTTGATTCTACTTCTAAAAAGTTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate