Basic Information
VIS ID
TVIS30001807
Fusion event
HIV-TDRD1 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
chr10
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
115947392/114187633 (Hg38)
End
115947392/114187633 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
TDRD1
miRNAs that regulate target gene
hsa-mir-5698 ; hsa-mir-183-5p ; hsa-mir-891a-3p ; hsa-mir-143-5p ; hsa-mir-6879-3p ; hsa-mir-4430 ; hsa-mir-122-5p ; hsa-mir-3652 ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-103b ; hsa-mir-5693 ; hsa-mir-500b-3p ; hsa-mir-487a-3p ; hsa-mir-154-3p
Nearest miRNA
hsa-mir-107/Upstream/13454; hsa-mir-202/Downstream/2639855;
Nearest TSS
ENST00000439456/Upstream/8043; ENST00000603594/Downstream/51697;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/13130, chr10-CpG: 70/Downstream/51616
Upstream sequence
AATTAGTGTTGCCTCAAAAGCTTTTAAAAGTAAGGAATGGTGTTGAACGCTGAGATTTTTGATTTTTCATGAGTTGGTCTGTTGATTTCTGTTAGAGTTC
Downstream sequence
ATACTTACAGAGAACTGGTGTTTTTCTTGTGCCTTGTCGGCCAAGTTTTGATGTCATGGTTATATCTGCTTTGGAATTGTTTTATAGGCATTATCTGTTA
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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