Basic Information
VIS ID
TVIS30013457
Fusion event
HIV-GRIK2 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
q16.3
Reference genome
GRCh37/hg19
Start
101992898/101545022 (Hg38)
End
101992898/101545022 (Hg38)
Orient
+
Location type
Intronic
Target gene
GRIK2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-1303 ; hsa-mir-3122 ; hsa-mir-3123 ; hsa-mir-3201 ; hsa-mir-3675-5p ; hsa-mir-3913-5p ; hsa-mir-3925-5p ; hsa-mir-450a-1-3p ; hsa-mir-450b-3p ; hsa-mir-4791 ; hsa-mir-5002-5p ; hsa-mir-5089-5p ; hsa-mir-6513-5p ; hsa-mir-6728-5p ; hsa-mir-6751-5p ; hsa-mir-6752-5p ; hsa-mir-6803-5p ; hsa-mir-6835-5p ; hsa-mir-6842-5p ; hsa-mir-6890-5p ; hsa-mir-7110-5p ; hsa-mir-769-3p ; hsa-mir-887-5p
Nearest miRNA
hsa-mir-10398/Upstream/2420326; hsa-mir-1202/Downstream/5239103;
Nearest TSS
ENST00000381078/Upstream/146229; ENST00000455610/Downstream/76926;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/141924, chr6-CpG: 79/Downstream/3314222
Upstream sequence
AGTGCTTTTAAATATAAAGGAGTTATTCTGCTCTTTTGTAAAATAATAAAGACCGCCCTAGGATGGATCGCCACATATATTTTCTATTTCTCTAAGTAGT
Downstream sequence
ATGTTCAAAGCTGAACATTTGTTTCTTCATCTTTGCCATTCTTTCCTTCTTTTCCCCTGAAGTTTCTCCTCTCTTGAACATTTAAGGACACCTCCTCAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate