Basic Information
VIS ID
TVIS44015951
Fusion event
HTLV-1-AFF3 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
HTLV-1 associated myelopathy/tropical spastic paraparesis (HAM/TSP)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29186194
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
100267776/99651314 (Hg38)
End
100267776/99651314 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2A
Target gene
AFF3
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6867-5p ; hsa-mir-3177-5p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1227-3p ; hsa-mir-4252 ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-1273g-3p ; hsa-mir-508-5p ; hsa-mir-6849-3p
Nearest miRNA
hsa-mir-1285-2/Upstream/2852961; hsa-mir-10b/Downstream/1658136;
Nearest TSS
ENST00000437798/Upstream/72944; ENST00000434301/Downstream/355531;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/57285, chr2-CpG: 138/Downstream/452609
Nearest cancer related gene
AFF3(OG, No orient, 0)
Upstream sequence
CTCCCAAGTTTTGTACTTGCTTTCCTTTTCTCTGGCTATTCTATTTTTCACCCATTTGCCTTCTATCTCTGGGCCCAATGAGGCCAAGGAAGGCAGATGG
Downstream sequence
CACACGATGCTCTCTGTCTCAGAAGTCATGACTGGGGAGGTCAGTAGACCAGGCCTACTCAGCATGCACCGGGAAACAAGGAGTGTGCAATGGTCCTTTC
Reference
Furuta, R., et al.Human T-cell leukemia virus type 1 infects multiple lineage hematopoietic cells in vivo. PLoS Pathog,2017,13(11): e1006722.
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