Basic Information
VIS ID
TVIS44020511
Fusion event
HTLV-1-GCN1 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
chr12
Cytoband
q24.23
Reference genome
GRCh37/hg19
Start
120577457/120139653 (Hg38)
End
120577457/120139653 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E ; FRA12C
Target gene
GCN1
miRNAs that regulate target gene
hsa-mir-1293 ; hsa-mir-1226-3p ; hsa-mir-18a-3p ; hsa-mir-484 ; hsa-mir-425-3p ; hsa-mir-423-3p ; hsa-mir-328-3p ; hsa-mir-185-5p ; hsa-mir-149-5p ; hsa-mir-222-3p ; hsa-mir-221-3p ; hsa-let-7b-5p ; hsa-let-7a-5p
Nearest miRNA
hsa-let-7i/Upstream/425929; hsa-mir-3612/Downstream/15781;
Nearest TSS
ENST00000382841/Upstream/715; ENST00000538804/Downstream/16034;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/22233, chr12-CpG: 66/Downstream/54766
Upstream sequence
gaaggtcaaggttacaatgagctatgatcgcaccactgcactccagcctgggtgacagagtaagaccccgtctcaataaaaaaaaaaaGCAGAGAGGATG
Downstream sequence
TGATGCACCCCCATGTATCCTTCACTGAGACTTAATAATCAACAGCTTGAATCTTTTAGGTGAATTCTCAATATACCTCCCATCTTCTCTAAGAACTGCA
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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