Basic Information
VIS ID
TVIS44007576
Fusion event
HTLV-1-RNLS integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24735963
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr10
Cytoband
q23.31
Reference genome
GRCh37/hg19
Start
90041714/88281957 (Hg38)
End
90041714/88281957 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D
Target gene
RNLS
miRNAs that regulate target gene
hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4708-3p ; hsa-mir-892c-5p ; hsa-mir-9500 ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-5584-5p ; hsa-mir-4735-3p ; hsa-mir-18b-5p ; hsa-mir-18a-5p ; hsa-mir-548n
Nearest miRNA
hsa-mir-1265/Upstream/778003; hsa-mir-107/Downstream/781378;
Nearest TSS
ENST00000439456/Upstream/329758; ENST00000526923/Downstream/301233;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/417629, chr10-CpG: 61/Downstream/300814
Upstream sequence
ATGTAGAATTAGGCATaggagaagaggcaggaaaaaaaatagaaggggaggaagaaatggcagaaactggaagaaaagaagagagcaaaacaaggggaac
Downstream sequence
aaagaaacaaagaggaatcagatggaaaggatgaaCGCACGGTGAGTCTGTACTGTAACCAGCTACAGCTGGGTTGAAATTCAGTGTCATTAGCATGCAG
Reference
Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.
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