Basic Information
VIS ID
TVIS30006366
Fusion event
HIV-TDRD3 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
chr13
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
60994972/60420838 (Hg38)
End
60994972/60420838 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA13B ; FRA13C
Target gene
TDRD3
miRNAs that regulate target gene
hsa-mir-20a-5p ; hsa-mir-16-5p
Nearest miRNA
hsa-mir-1297/Upstream/5246290; hsa-mir-1267/Downstream/778960;
Nearest TSS
ENST00000623511/Upstream/23504; ENST00000463109/Downstream/13209;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/22927, chr13-CpG: 36/Downstream/3390748
Upstream sequence
aagaccatcctggctaacatggtgaaaccccgtctctactaaaaatacaaaaaaaattagccgggcgtgatggcgggcgcctgtagtcccagctactcgg
Downstream sequence
gaggctgaggcaggaaaatggcatgaacccaggaggcggagcttgcagtgagccgagatcacgtcactgtgctccaacctaggtgacagactgagactcc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate