Basic Information
VIS ID
TVIS44011572
Fusion event
HTLV-1-EPB41L4B 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
q31.3
Reference genome
GRCh37/hg19
Start
111952852/109190572 (Hg38)
End
111952852/109190572 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9E
Target gene
EPB41L4B
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-30e-3p ; hsa-mir-30d-3p ; hsa-mir-30a-3p ; hsa-mir-3942-3p ; hsa-mir-2110 ; hsa-mir-6864-5p ; hsa-mir-5100 ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-4668-5p ; hsa-mir-5093 ; hsa-mir-3179 ; hsa-mir-7515 ; hsa-mir-627-3p ; hsa-mir-1245b-3p ; hsa-mir-6783-5p ; hsa-mir-1252-3p ; hsa-mir-3662 ; hsa-mir-3658 ; hsa-mir-31-3p ; hsa-mir-7853-5p ; hsa-mir-105-5p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-7-2-3p ; hsa-mir-7-1-3p ; hsa-mir-8077 ; hsa-mir-7160-5p ; hsa-mir-4663 ; hsa-mir-3182 ; hsa-mir-29b-1-5p ; hsa-mir-6814-5p ; hsa-mir-141-5p ; hsa-mir-6796-3p
Nearest miRNA
hsa-let-7a-1/Upstream/144274; hsa-mir-12126/Downstream/320903;
Nearest TSS
ENST00000422679/Upstream/23277; ENST00000465091/Downstream/130392;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/23265, chr9-CpG: 218/Downstream/128550
Upstream sequence
GTCTCCTAGACCAAGGTACCTGAGCACTTCCCTTCCTCATGCTCCACTCAGCAACTCTGAGGACCAAACCTGGGCTGACAGCTTGGAGATGGTCCCAGGG
Downstream sequence
CTGTCCCACAGCCCAGACTGAGACCAGGGCATCTGACCCGCTTTGAGGGAGGGTACTGGCTAACAGGGAAAGACACAGACACATCCTGGATTGGGCCATC
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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