Basic Information
VIS ID
TVIS30009052
Fusion event
HIV-C6orf89 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
p21.2
Reference genome
GRCh37/hg19
Start
36882100/36914324 (Hg38)
End
36882100/36914324 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA6H
Target gene
C6orf89
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-3918 ; hsa-mir-4685-5p ; hsa-mir-6837-5p ; hsa-mir-6895-5p ; hsa-mir-7106-3p ; hsa-mir-6741-5p ; hsa-mir-4662a-5p ; hsa-mir-5580-5p ; hsa-mir-6868-5p ; hsa-mir-1245b-3p ; hsa-mir-5096 ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-6802-3p ; hsa-mir-411-5p ; hsa-mir-6832-5p ; hsa-mir-193b-5p ; hsa-mir-1273f ; hsa-mir-3620-3p ; hsa-mir-6865-3p ; hsa-mir-6890-5p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-7113-5p
Nearest miRNA
hsa-mir-1236/Upstream/291812; hsa-mir-10398/Downstream/641041;
Nearest TSS
ENST00000381078/Upstream/28460; ENST00000491324/Downstream/30351;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/28173, chr6-CpG: 35/Downstream/44828
Upstream sequence
TGGATGTACCAGCTATGCTCTTTCAGTATCTGTTTTCTCCATATCCCTTCCTCTCTCAGACTTTGACCCCTGGTGGACAAACGACTGTGAGCAGAATGAG
Downstream sequence
TCAGAGCCCATTCCTGCCAACTGCACTGGCTGTGCCCAGAAACACCTGAAGGTGATGCTCCTGGAAGACGCCCCAAGGAAATTTGAGAGGCTCCATCCAC
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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