Basic Information
VIS ID
TVIS30006242
Fusion event
HIV-GIT2 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
chr12
Cytoband
q24.11
Reference genome
GRCh37/hg19
Start
110422124/109984319 (Hg38)
End
110422124/109984319 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
GIT2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-26a-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-218-5p ; hsa-mir-210-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-let-7i/Upstream/150883; hsa-mir-1178/Downstream/1319823;
Nearest TSS
ENST00000382841/Upstream/1139; ENST00000550404/Downstream/7769;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/83533, chr12-CpG: 45/Downstream/11655
Upstream sequence
ggccacatagcaagactctggctctacaaaaaatacaaaaattagttgggtgtggtggcatgcgcacctgtagtcccagctactaaggaggctgaggtgg
Downstream sequence
gaagatcacctgagcctgggcagtggaggctgcagtgagctgtgatcatgccactgcactccagccttggtgacagagcgagaccctgtctcaaaaaaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate