Basic Information
VIS ID
TVIS30010274
Fusion event
HIV-TMPO 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
chr12
Cytoband
q23.1
Reference genome
GRCh37/hg19
Start
98919906/98526128 (Hg38)
End
98919906/98526128 (Hg38)
Orient
+
Location type
Intronic
Target gene
TMPO
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-1301-3p ; hsa-mir-1296-5p ; hsa-mir-615-3p ; hsa-mir-106b-5p ; hsa-mir-320a ; hsa-mir-96-5p ; hsa-mir-3973 ; hsa-mir-520g-3p ; hsa-mir-520h ; hsa-mir-409-3p ; hsa-mir-4781-3p ; hsa-mir-454-5p ; hsa-mir-1299 ; hsa-mir-595 ; hsa-mir-4261 ; hsa-mir-4642 ; hsa-mir-514b-5p ; hsa-mir-513c-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-1298-3p ; hsa-mir-3126-3p
Nearest miRNA
hsa-let-7i/Upstream/530680; hsa-mir-1178/Downstream/1663756;
Nearest TSS
ENST00000382841/Upstream/9706; ENST00000547214/Downstream/1401;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/9645, chr12-CpG: 93/Downstream/67287
Upstream sequence
GTACTTTTGCTTCCTTTTTATTTGTTCAACCTTGGAAATTTATAGTTTTTCCAGTAAATACTGCCTTTGTAGAAATTAATTTTAAAACTTTCAAATTTTC
Downstream sequence
CCTCAAAGTTTGTTTCAAGTTATTTTGACTATTTTTAGTAAACTGGTGGTACAGAAGTTAATCTGGTGACTAAACTGTGTCACAGGTGATAATTTAACCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate