Basic Information
VIS ID
TVIS30009009
Fusion event
HIV-MDC1-AS1 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
30677466/30709689 (Hg38)
End
30677466/30709689 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA6H
Target gene
MDC1-AS1
Nearest miRNA
hsa-mir-3143/Upstream/125272; hsa-mir-10398/Downstream/181194;
Nearest TSS
ENST00000381078/Upstream/2004; ENST00000327892/Downstream/2225;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/18441, chr6-CpG: 52/Downstream/7370
Upstream sequence
aactgaacactagaacttattcattcaatctgactggatttttgtattcattaaccaacctctttatgcattctgtccctctacccttcctagcctttgg
Downstream sequence
taaccaccattctactctctacttccatgagatccatgtttttagctcccacatgagtgagcatacaatatttgcctttctgtgctgacttatttcactt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate