Basic Information
VIS ID
TVIS30008872
Fusion event
HIV-RAD50 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
chr5
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
131960038/132624346 (Hg38)
End
131960038/132624346 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5C
Target gene
RAD50
miRNAs that regulate target gene
hsa-mir-544a ; hsa-mir-6858-5p ; hsa-mir-4689 ; hsa-mir-6845-5p ; hsa-mir-6762-5p ; hsa-mir-4640-5p ; hsa-mir-4726-5p ; hsa-mir-766-5p ; hsa-mir-5093 ; hsa-mir-4261 ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-7113-5p ; hsa-mir-5584-5p ; hsa-mir-4496 ; hsa-mir-1252-3p ; hsa-mir-335-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6842-3p ; hsa-mir-647 ; hsa-mir-4753-3p ; hsa-mir-539-3p ; hsa-mir-485-3p ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-3160-5p ; hsa-mir-130b-5p ; hsa-mir-1182 ; hsa-mir-1304-3p ; hsa-mir-4524b-3p ; hsa-mir-4639-3p ; hsa-mir-4727-5p ; hsa-mir-4769-3p ; hsa-mir-511-5p ; hsa-mir-6794-3p ; hsa-mir-6817-5p ; hsa-mir-6830-3p ; hsa-mir-7702
Nearest miRNA
hsa-mir-10397/Upstream/258747; hsa-mir-103a-1/Downstream/803250;
Nearest TSS
ENST00000502646/Upstream/6075; ENST00000617259/Downstream/17427;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/67081, chr5-CpG: 77/Downstream/31516
Upstream sequence
CTCTCCTAGATATTAGATCCAGCAGTTTAAAGTGGTTAGTCTTGGAATTTAAGGTGCTGAAACAAGAACATAAGCAAAACTTAAGGAATTCTTGCCCAGT
Downstream sequence
AGACTACACATACATATATTTGTTTTTTGTTTTTTGGTTTTTTTTGCCTTTAATAATTCTTTTTAGTCTTCTCAGCTACCTCATTTATGCCTTTAGGGGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate