Basic Information
VIS ID
TVIS44017981
Fusion event
HTLV-1-SCARF1 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
chr17
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
1537950/1634656 (Hg38)
End
1537950/1634656 (Hg38)
Orient
+
Location type
UTR3
Target gene
SCARF1
miRNAs that regulate target gene
hsa-mir-548q ; hsa-mir-4662a-5p ; hsa-mir-4282 ; hsa-mir-665 ; hsa-mir-6771-5p ; hsa-mir-1268b ; hsa-mir-1268a ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-6770-5p ; hsa-mir-4649-3p ; hsa-mir-6746-5p ; hsa-mir-1247-3p ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-3154 ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-4327 ; hsa-mir-6499-3p ; hsa-mir-4537 ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6849-3p ; hsa-mir-1273g-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-508-5p ; hsa-mir-361-5p ; hsa-mir-3617-3p ; hsa-mir-374a-3p ; hsa-mir-545-3p
Nearest miRNA
hsa-mir-3183/Upstream/612097; hsa-mir-10226/Downstream/79247;
Nearest TSS
ENST00000595228/Upstream/5770; ENST00000615078/Downstream/5901;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/4721, chr17-CpG: 36/Downstream/465
Upstream sequence
ATCCTACAGGGTCTCTGCCCAGGCCTTCCTGGGCCCCTCCGGGAGCACTGCCAGGGGCCTGGGCCAACTGGCCTGGAAGCCTTGCCTTTTCCCTGTGGAG
Downstream sequence
GCGCAGAGGCTCTGGTTTGTCTGTCCTGGCCCCGGGATCATTTTCCAGCACACAGCACAGTCTAGTCCATCCACTCTCCCCACTCCCCAAATTCAAGGTC
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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