Basic Information
VIS ID
TVIS30010962
Fusion event
HIV-RWDD1 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
q22.1
Reference genome
GRCh37/hg19
Start
116911964/116590801 (Hg38)
End
116911964/116590801 (Hg38)
Orient
+
Location type
Intronic
Target gene
RWDD1
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-411-5p ; hsa-mir-4662a-5p ; hsa-mir-7852-3p ; hsa-mir-3668 ; hsa-mir-5680 ; hsa-mir-450b-5p ; hsa-mir-4474-5p ; hsa-mir-1251-3p ; hsa-mir-202-3p ; hsa-mir-98-5p ; hsa-mir-4500 ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-942-5p ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-877-3p ; hsa-mir-4775 ; hsa-mir-4705 ; hsa-mir-590-3p ; hsa-mir-34b-3p
Nearest miRNA
hsa-mir-10398/Upstream/9806581; hsa-mir-1202/Downstream/2478246;
Nearest TSS
ENST00000381078/Upstream/10594; ENST00000368580/Downstream/25678;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/19030, chr6-CpG: 53/Downstream/90134
Upstream sequence
ACTGGGTTTTCACTTGTTCCATTTTAATGCAGATACATTTCATATGCCACTTAGCTACTGAATAAATTCAGAAATTTATTGAAATTCACAGAAAAAGAGG
Downstream sequence
TTTTCAAATTTGCTTTCTAAGTATTGTAGTGAAAATGGAGAAAAACTATGCCATTTGAATTAAACATACTTTTTTTTTTTTTTTAGGGAAACAACTATTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate