Basic Information
VIS ID
TVIS30004901
Fusion event
HIV-YTHDC2 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
chr5
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
112890031/113554334 (Hg38)
End
112890031/113554334 (Hg38)
Orient
+
Location type
Intronic
Target gene
YTHDC2
miRNAs that regulate target gene
hsa-mir-505-3p ; hsa-mir-30c-5p ; hsa-mir-96-5p
Nearest miRNA
hsa-mir-10397/Upstream/3040419; hsa-mir-103a-1/Downstream/2701409;
Nearest TSS
ENST00000502646/Upstream/40188; ENST00000506333/Downstream/11385;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/40049, chr5-CpG: 76/Downstream/501040
Upstream sequence
TGCCTTAAATAATTCAGTATATAGAATCAATTTTTGTTATTTTAACAAAGTATACAAAAATGTAGCTCTGCTCACCAAATACTAGGAAGAAAGTAAAGGG
Downstream sequence
TTTGGTTAGTTATAGTGAAAATGTTGTCACACAGTATGGGAATTTGATTACATATTTTTTATGTTTTCCTTctacatatgcacatggattatgtctttgt
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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