Basic Information
VIS ID
TVIS30004190
Fusion event
HIV-GABBR2 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
chr9
Cytoband
q22.33
Reference genome
GRCh37/hg19
Start
101229362/98467080 (Hg38)
End
101229362/98467080 (Hg38)
Orient
-
Location type
Intronic
Target gene
GABBR2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-129-5p ; hsa-mir-34c-5p ; hsa-mir-144-5p ; hsa-mir-599
Nearest miRNA
hsa-let-7a-1/Upstream/237863; hsa-mir-12126/Downstream/8133848;
Nearest TSS
ENST00000422679/Upstream/78193; ENST00000610463/Downstream/49219;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/210781, chr9-CpG: 230/Downstream/240217
Upstream sequence
cagccatcacatccacattccagtcaacacaaaagagaatgaaaaagaaaggccatatccccctttaatagagcctttctagaagtcccacataacactt
Downstream sequence
ctacttatatctcattggccagacttgcaatcccggccatatctagcatggaaggctgggaagtgtataatacattttccagtgaggtggcaacataccc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate