Basic Information
VIS ID
TVIS30008644
Fusion event
HIV-SYNPO2 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
chr4
Cytoband
q26
Reference genome
GRCh37/hg19
Start
119787457/118866302 (Hg38)
End
119787457/118866302 (Hg38)
Orient
-
Location type
Intronic
Target gene
SYNPO2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-150-5p ; hsa-mir-144-5p
Nearest miRNA
hsa-mir-12113/Upstream/4209448; hsa-mir-1305/Downstream/6640957;
Nearest TSS
ENST00000502981/Upstream/15614; ENST00000434046/Downstream/22539;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/29646, chr4-CpG: 67/Downstream/346107
Nearest cancer related gene
SYNPO2(TSG, No orient, 0)
Upstream sequence
gtggtgtgagcccattgtgtgcattgtaggatgtttagctgcatccctggcctctactcattaaatccaagtaggaacgccctcccactccccgaccccc
Downstream sequence
acactaacctggcaatcaaaaatgtccccaaacattgtcagatgtgctgtggaggaaaaactacccttggttgagaacgactgctccaacaccacgaaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate