Basic Information
VIS ID
TVIS30007405
Fusion event
HIV-HNRNPM 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
chr19
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
8525927/8461043 (Hg38)
End
8525927/8461043 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
HNRNPM
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-26b-5p ; hsa-let-7f-1-3p ; hsa-mir-615-3p ; hsa-mir-18a-3p ; hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-331-3p ; hsa-mir-191-5p ; hsa-mir-15b-5p ; hsa-mir-183-5p ; hsa-mir-93-5p ; hsa-mir-92a-3p ; hsa-mir-29a-3p
Nearest miRNA
hsa-mir-1227/Upstream/71663; hsa-let-7e/Downstream/1577311;
Nearest TSS
ENST00000633603/Upstream/16049; ENST00000593293/Downstream/926;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/15162, chr19-CpG: 60/Downstream/24612
Upstream sequence
GCATTTTTGGAACTGCTTTACTTTTTAAGGGTTAAATAAAGCCGCTTTGTACAACTGTCCCTTGGCTGTGATCATTTTTCAGTTTGCCCCACAGGAGTAC
Downstream sequence
ATACTCTAAAAGTAAATTGTACTGATCCCTCATATTTCCGTTCTTCATTTCTTTGCACTGATGATTCTCCTGTTTTGTACAAAGTGTCAGTTTCGTTCTG
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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