Basic Information
VIS ID
TVIS44012524
Fusion event
HTLV-1-RFX3 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
chr9
Cytoband
p24.2
Reference genome
GRCh37/hg19
Start
3350227/3350227 (Hg38)
End
3350227/3350227 (Hg38)
Orient
+
Location type
Intronic
Target gene
RFX3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-148b-3p ; hsa-mir-128-3p ; hsa-mir-615-3p ; hsa-mir-342-3p ; hsa-mir-4698 ; hsa-mir-892c-5p ; hsa-mir-4428 ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-1264 ; hsa-mir-4668-5p ; hsa-mir-6738-3p ; hsa-mir-544a ; hsa-mir-3977 ; hsa-mir-6071 ; hsa-mir-6828-3p ; hsa-mir-222-5p
Nearest miRNA
hsa-mir-1302-9/Upstream/3319946; hsa-let-7a-1/Downstream/1500070;
Nearest TSS
ENST00000422679/Upstream/3463; ENST00000430387/Downstream/45361;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/168360, chr9-CpG: 89/Downstream/175794
Upstream sequence
cattaaatggaaaatttctactttgaaagacactgtgaagaaaatgaaaagacaagccacaaactggggaagaatatttgcaatactgatctgattaagg
Downstream sequence
attgttatccaaaatttacaaagagctcttaaaactcaacaataagaaaataaacaagctgattttaaaagggccaaagaccttaatacagatgacaaat
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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