Basic Information
VIS ID
TVIS30005559
Fusion event
HIV-TRDMT1 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
p13
Reference genome
GRCh37/hg19
Start
17214536/17172537 (Hg38)
End
17214536/17172537 (Hg38)
Orient
+
Location type
Intronic
Target gene
TRDMT1
miRNAs that regulate target gene
hsa-mir-1227-3p ; hsa-mir-648 ; hsa-mir-595 ; hsa-mir-5692a
Nearest miRNA
hsa-mir-1265/Upstream/2735876; hsa-mir-107/Downstream/672570;
Nearest TSS
ENST00000439456/Upstream/3118; ENST00000497849/Downstream/2123;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/354561, chr10-CpG: 49/Downstream/28768
Upstream sequence
agttgagcccaagagtttgagaccagcctgggcaacatagtgagaccctgcctctccaaaaaagaaaaaaaaatgagtaaaaattatatttcacagtgaa
Downstream sequence
gacaaaataaaacacttttttactcaaaagcaccaaggtaatttgtccctttccacatataaccaacaagagacactaaagaaggtttttcaggaagaag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate