Basic Information
VIS ID
TVIS30011700
Fusion event
HIV-ABCD2 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
q12
Reference genome
GRCh37/hg19
Start
39999566/39605764 (Hg38)
End
39999566/39605764 (Hg38)
Orient
-
Location type
Intronic
Target gene
ABCD2
miRNAs that regulate target gene
hsa-mir-411-5p ; hsa-mir-3117-3p ; hsa-mir-3607-3p ; hsa-mir-1208 ; hsa-mir-8083 ; hsa-mir-3169 ; hsa-mir-4759 ; hsa-mir-4276 ; hsa-mir-1257 ; hsa-mir-15b-3p ; hsa-mir-5187-3p ; hsa-mir-5190 ; hsa-mir-4699-3p ; hsa-mir-5094 ; hsa-mir-4724-5p ; hsa-mir-4671-3p ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301a-3p ; hsa-mir-301b-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-4267 ; hsa-mir-5586-5p ; hsa-mir-605-5p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-3074-5p ; hsa-mir-627-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-5003-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/13731685; hsa-let-7i/Downstream/2717936;
Nearest TSS
ENST00000382841/Upstream/162374; ENST00000405531/Downstream/13987;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/162067, chr12-CpG: 108/Downstream/499396
Upstream sequence
GAGAACACCTTGCTATCAGGGTACTCTGAAAGGTGACTCATTTCCTATCAAGAACATGTTTCTCAATGAAACAGAATGCACAAGAACTAAGGATAGTTCT
Downstream sequence
TGCACAAGAATACACAAGAATAAGCAAGGTATCTCAGAAATAAATGTTTCTTAATAAATTGCGGAAAAATACAACAATGCTGACATTTGTGTAAAATTTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate