Basic Information
VIS ID
TVIS30007695
Fusion event
HIV-GMCL1 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
chr2
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
70108095/69880963 (Hg38)
End
70108095/69880963 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2E
Target gene
GMCL1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-129-5p ; hsa-mir-8055 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-6794-3p ; hsa-mir-4294 ; hsa-mir-3135a ; hsa-mir-1304-3p ; hsa-mir-4639-3p ; hsa-mir-3664-5p
Nearest miRNA
hsa-mir-1301/Upstream/777208; hsa-mir-10b/Downstream/371955;
Nearest TSS
ENST00000437798/Upstream/11406; ENST00000488986/Downstream/12597;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/50512, chr2-CpG: 126/Downstream/33264
Nearby gene
GMCL1(No orient, 1368)
Upstream sequence
aaaaaGAGGCTACTGTACTTATTTTTATATTTGACTACATTAGGTCTTTTTCACGGGAAGCTGTTGTTTTCTTTCCGTCTCATTACTGTATAAGAGTTTC
Downstream sequence
CTTACCCTTTATGTATTGAAAAATATATAAATTCCAAACTTAAATTATTTGGATAATTAAGTTTTTGCAGATCTTGGAAGTAAAGATAATGTTTTGATCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate