Basic Information
VIS ID
TVIS30002002
Fusion event
HIV-CD4 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
p13.31
Reference genome
GRCh37/hg19
Start
6911585/6802419 (Hg38)
End
6911585/6802419 (Hg38)
Orient
-
Location type
Intronic
Target gene
CD4
miRNAs that regulate target gene
hsa-mir-181a-5p ; hsa-mir-3674 ; hsa-mir-7843-3p ; hsa-mir-877-5p ; hsa-mir-4732-5p ; hsa-mir-6832-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4470 ; hsa-mir-4731-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-4786-3p ; hsa-mir-6784-5p ; hsa-mir-6840-3p ; hsa-mir-665 ; hsa-mir-4768-3p ; hsa-mir-4695-5p ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125 ; hsa-mir-5197-5p ; hsa-mir-1273d ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-638 ; hsa-mir-4713-3p
Nearest miRNA
hsa-mir-3649/Upstream/5142039; hsa-let-7i/Downstream/161280;
Nearest TSS
ENST00000382841/Upstream/12851; ENST00000543755/Downstream/11133;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/28479, chr12-CpG: 23/Downstream/21691
Nearest cancer related gene
CD4(TSG, No orient, 0)
Upstream sequence
tttttttttttttttctttttgagacagggtctcactctgctgcccaggctggagtacagtggcatgaccacaacacatcacagcctcaagtgatcttcc
Downstream sequence
cacttcagccttcccagtagctgggactacaggtgcacgccaccatgttcacctaattttttactttttgtagagatgagacttcaccatgttgctcagg
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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