Basic Information
VIS ID
TVIS44020518
Fusion event
HTLV-1-SCARB1 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
q24.31
Reference genome
GRCh37/hg19
Start
125263947/124779401 (Hg38)
End
125263947/124779401 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
SCARB1
miRNAs that regulate target gene
hsa-mir-185-5p ; hsa-mir-96-5p ; hsa-mir-223-3p ; hsa-mir-877-3p ; hsa-mir-615-3p ; hsa-mir-324-5p ; hsa-mir-92a-3p ; hsa-mir-450b-5p ; hsa-mir-106a-3p ; hsa-mir-5739 ; hsa-mir-5091 ; hsa-mir-3121-5p ; hsa-mir-501-5p ; hsa-mir-3610
Nearest miRNA
hsa-let-7i/Upstream/442159; hsa-mir-3612/Downstream/136146;
Nearest TSS
ENST00000382841/Upstream/211812; ENST00000341446/Downstream/7092;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/40197, chr12-CpG: 27/Downstream/35527
Upstream sequence
AACAGAAGACAGGGAGGAAAGCCAGCCACACAGCAATACACGCAGCAGGATGCAGCTTCGGTCACATTCAAAAAGTGACCTCATGCTCATGGCTGCGCAC
Downstream sequence
ATGCAGATTCAGAAAAAACAAACCCACGTGCCAAGTTCCTGGCCATGGCTGCTCAGGGTATGCGGGGCGCAGGACGTGGGGAGGGGGACGAGGGCCACCC
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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