Basic Information
VIS ID
TVIS30008078
Fusion event
HIV-KCNJ15 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
chr21
Cytoband
q22.13
Reference genome
GRCh37/hg19
Start
39625796/38253874 (Hg38)
End
39625796/38253874 (Hg38)
Orient
+
Location type
Intronic
Target gene
KCNJ15
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-98-5p ; hsa-mir-498 ; hsa-mir-298 ; hsa-mir-548ao-3p ; hsa-mir-4684-5p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-433-5p ; hsa-mir-6771-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac
Nearest miRNA
hsa-let-7c/Upstream/2533066; hsa-mir-3197/Downstream/1193136;
Nearest TSS
ENST00000624081/Upstream/15673; ENST00000417042/Downstream/2824;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/336910, chr21-CpG: 170/Downstream/406445
Upstream sequence
CAGATGTCATTTCAGATCTTCATAGAAAAATCCAGACTTCTATGTATTTTCTATGCAAATTTGACACAACTAAGAGTCTTTCCGTTAACTGTGGAGGTGG
Downstream sequence
GGGTTGGGGAGCAGAAAGAAGTAAACACAACTTACTGAATAGTCATTTATATTTGTTTTTATCTTCGGCTAAAAGGTCAGTAAAATTAACCATGTTCAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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