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TVIS44019402
Basic Information
VIS ID
TVIS44019402
Fusion event
HTLV-1-SCARB2 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
chr4
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
77122370/76201217 (Hg38)
End
77122370/76201217 (Hg38)
Orient
-
Location type
Intronic
Target gene
SCARB2
miRNAs that regulate target gene
hsa-mir-7-5p
;
hsa-mir-365a-3p
;
hsa-mir-222-3p
;
hsa-mir-92a-3p
;
hsa-mir-590-3p
;
hsa-mir-136-5p
;
hsa-mir-3942-3p
;
hsa-mir-6501-3p
;
hsa-mir-205-3p
;
hsa-mir-5590-3p
;
hsa-mir-142-5p
;
hsa-mir-340-5p
;
hsa-mir-4446-5p
;
hsa-mir-4755-5p
;
hsa-mir-5006-3p
;
hsa-mir-670-5p
;
hsa-mir-4775
;
hsa-mir-4424
;
hsa-mir-6761-5p
;
hsa-mir-4735-5p
;
hsa-mir-4324
;
hsa-mir-4732-3p
;
hsa-mir-345-3p
;
hsa-mir-3174
;
hsa-mir-6796-3p
;
hsa-mir-99b-3p
;
hsa-mir-99a-3p
;
hsa-mir-4319
;
hsa-mir-125b-5p
;
hsa-mir-125a-5p
;
hsa-mir-3658
;
hsa-mir-3653-3p
Nearest miRNA
hsa-mir-12113/Upstream/9924289; hsa-mir-1243/Downstream/372351;
Nearest TSS
ENST00000502981/Upstream/21508;
ENST00000515589/Downstream/12121;
Nearest CpG islands
None/Target,
chr4-CpG: 46/Upstream/52698
,
chr4-CpG: 100/Downstream/12196
Upstream sequence
actgttacctagcacccaccacacaagttctcagccagtgccttggcctgagtcactcaccgcccttcacccagaagtctctgcagggcccttatcacct
Downstream sequence
ggttcacttctacttgggcttcagggctcaattcagaagtgccatctctcagaaggcccctctgaACTATGTGTTTTCTCTCTGCTTTCATGAAACTTCA
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.
Sample Information
×
Sample name
HAM/TSP#2
Sample type
Nontumor
Gender
Female
CpG Island Information
×
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