Basic Information
VIS ID
TVIS44017900
Fusion event
HTLV-1-SHCBP1 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
chr16
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
46624724/46590812 (Hg38)
End
46624724/46590812 (Hg38)
Orient
+
Location type
Intronic
Target gene
SHCBP1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-425-5p ; hsa-mir-340-5p ; hsa-mir-33a-5p ; hsa-mir-32-5p ; hsa-mir-19b-3p ; hsa-mir-877-3p ; hsa-mir-455-3p ; hsa-mir-200b-3p ; hsa-mir-200c-3p ; hsa-mir-429 ; hsa-mir-580-3p ; hsa-mir-7153-5p ; hsa-mir-146b-5p ; hsa-mir-146a-5p ; hsa-mir-589-5p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-4773 ; hsa-mir-2115-3p ; hsa-mir-5003-3p ; hsa-mir-1183 ; hsa-mir-34a-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-1225/Upstream/12427139; hsa-mir-11401/Downstream/3701804;
Nearest TSS
ENST00000527434/Upstream/6559; ENST00000569239/Downstream/13032;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/161838, chr16-CpG: 42/Downstream/30278
Upstream sequence
ttggtgggagtgtatattagttcaaccattgtggaagacagtgtggcaattcctcaaggatctagaactagaaataccatttgatccagccatcccatta
Downstream sequence
ctgggtatatacccaaaggattatgaatcatgctgctataaagacacatgcacatgtatctttattgaggcactattcacaatagcaaagacttggaacc
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.
Curate