Basic Information
VIS ID
TVIS30010117
Fusion event
HIV-ARID4B 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
chr1
Cytoband
q42.3
Reference genome
GRCh37/hg19
Start
235342359/235179044 (Hg38)
End
235342359/235179044 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
ARID4B
miRNAs that regulate target gene
hsa-mir-106a-5p ; hsa-mir-19b-3p ; hsa-mir-20b-5p ; hsa-mir-92a-3p ; hsa-mir-130b-3p ; hsa-mir-93-5p ; hsa-mir-17-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-4325 ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-17-5p ; hsa-mir-519d-3p ; hsa-mir-526b-3p ; hsa-mir-302a-3p ; hsa-mir-302e ; hsa-mir-372-3p ; hsa-mir-373-3p ; hsa-mir-520a-3p ; hsa-mir-520b ; hsa-mir-302c-3p ; hsa-mir-520c-3p ; hsa-mir-302d-3p ; hsa-mir-520d-3p ; hsa-mir-520e ; hsa-mir-302b-3p ; hsa-mir-3691-3p ; hsa-mir-4480
Nearest miRNA
hsa-mir-101-1/Upstream/872505; hsa-mir-1537/Downstream/10990;
Nearest TSS
ENST00000473358/Upstream/3401; ENST00000489692/Downstream/2821;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/17642, chr1-CpG: 157/Downstream/147979
Upstream sequence
ATGTGACCCACCTAATGTCATTTTAATATCACAATTTAAGTGAAACATAAAGGAGACGTAGATATTGACCATACTGAAGCACAGAACCATAATTGTCAGG
Downstream sequence
TTTCTCTCCAAGAGAGTTTAATTCTAAAGTGTTCAGATACTAAGAAATAAAAACCTTCAATGTAGAGTAAATTAAGAGGAAAAAACTACATCTAAATAGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate