Basic Information
VIS ID
TVIS30010270
Fusion event
HIV-ATP2B1 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
q21.33
Reference genome
GRCh37/hg19
Start
90036173/89642396 (Hg38)
End
90036173/89642396 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12B
Target gene
ATP2B1
miRNAs that regulate target gene
hsa-mir-204-5p ; hsa-mir-615-3p ; hsa-let-7a-5p ; hsa-mir-150-5p ; hsa-mir-4713-5p ; hsa-mir-6892-3p ; hsa-mir-6817-3p ; hsa-mir-6873-3p ; hsa-mir-7110-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-142-3p ; hsa-mir-4465 ; hsa-mir-498 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-5697 ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-4282 ; hsa-mir-3606-3p ; hsa-mir-6749-3p ; hsa-mir-642a-5p ; hsa-mir-6845-3p ; hsa-mir-4469 ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-2276-5p ; hsa-mir-483-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-519d-3p ; hsa-mir-181a-5p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-let-7i/Upstream/2897247; hsa-mir-1178/Downstream/4919393;
Nearest TSS
ENST00000382841/Upstream/11642; ENST00000605386/Downstream/13623;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/116269, chr12-CpG: 258/Downstream/65263
Upstream sequence
AAAATTCTTTCCAAACACTGCTTCTCTTCTTTCTAAATCTGCAGGGTTTCCACTTAAACCTAATAAAAAGAAACAAATTTCAGTGAACAGTTTTACTTCT
Downstream sequence
TACAAATGAAAATATATAGTTTTATTCAAAATACCTCAACTCATCACTCTAGACCCTACCAAAATGTTTACTTTCATGCTTTAAGTGTACAGAATTTAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate