Basic Information
VIS ID
TVIS30003890
Fusion event
HIV-BICRAL 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
p21.1
Reference genome
GRCh37/hg19
Start
42800517/42832779 (Hg38)
End
42800517/42832779 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
BICRAL
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-192-5p ; hsa-mir-4526 ; hsa-mir-4504 ; hsa-mir-6721-5p ; hsa-mir-5191 ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-7854-3p ; hsa-mir-135a-3p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-9500 ; hsa-mir-6750-5p ; hsa-mir-6822-5p ; hsa-mir-5584-5p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-4311 ; hsa-mir-200a-3p ; hsa-mir-141-3p
Nearest miRNA
hsa-mir-10398/Upstream/1099169; hsa-mir-10524/Downstream/601763;
Nearest TSS
ENST00000381078/Upstream/11723; ENST00000492836/Downstream/46839;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/49085, chr6-CpG: 64/Downstream/57652
Upstream sequence
accaagattcccgaaatcttttctctccctttgtctctctctctcatatacaaacacacacacacaaacatacacacacacacttttcagagtaaattac
Downstream sequence
agacctgatgcttatgcctcttgactcctaattacctcaatgtgtatttgtaacagcaggggcattctcctacataaccacagtacagtaatgaacatta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate