Basic Information
VIS ID
TVIS44000256
Fusion event
HTLV-1-RAPGEF4 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28811663
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr2
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
173707499/172842771 (Hg38)
End
173707499/172842771 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2G
Target gene
RAPGEF4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-98-5p ; hsa-mir-26b-5p ; hsa-mir-17-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p
Nearest miRNA
hsa-mir-128-1/Upstream/4259753; hsa-mir-10b/Downstream/2324862;
Nearest TSS
ENST00000437798/Upstream/21196; ENST00000473003/Downstream/17267;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/106529, chr2-CpG: 86/Downstream/232915
Upstream sequence
tgacaagagccagtgtcccaagagaaccaggcagaagcttcttcaattttatgacctgccttggaagtcattcactgccactttcgtcatagtcacaagt
Downstream sequence
gcacccagatgcaaggggagggaacataggccttgcttttaacatcttcaagtcacactgtaggatgagcatgtgggaggggagatactgttgtggccat
Reference
Artesi, M., et al.Monitoring molecular response in adult T-cell leukemia by high-throughput sequencing analysis of HTLV-1 clonality. Leukemia ,2017,31(11): 2532-2535.
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