Basic Information
VIS ID
TVIS44017029
Fusion event
HTLV-1-RABGAP1 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
chr9
Cytoband
q33.2
Reference genome
GRCh37/hg19
Start
125856888/123094609 (Hg38)
End
125856888/123094609 (Hg38)
Orient
+
Location type
Intronic
Target gene
RABGAP1
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-9-5p ; hsa-mir-21-5p ; hsa-mir-93-3p ; hsa-mir-504-5p ; hsa-mir-92a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-541-5p ; hsa-mir-4668-5p ; hsa-mir-1277-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-656-3p ; hsa-mir-5011-5p ; hsa-mir-4433b-5p ; hsa-mir-4286 ; hsa-mir-4301 ; hsa-mir-6790-5p ; hsa-mir-4758-5p ; hsa-mir-4658 ; hsa-mir-4765 ; hsa-mir-1238-5p ; hsa-mir-1236-5p ; hsa-mir-6776-3p ; hsa-mir-4503 ; hsa-mir-6792-5p ; hsa-mir-8485 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-128-3p ; hsa-mir-216a-3p ; hsa-mir-224-5p ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-342-3p ; hsa-mir-3681-3p ; hsa-mir-500b-3p ; hsa-mir-6849-3p ; hsa-mir-6879-3p ; hsa-mir-1468-3p ; hsa-mir-3145-3p ; hsa-mir-548p ; hsa-mir-6083
Nearest miRNA
hsa-let-7a-1/Upstream/974442; hsa-mir-12126/Downstream/16937;
Nearest TSS
ENST00000422679/Upstream/5057; ENST00000359999/Downstream/27614;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/153291, chr9-CpG: 131/Downstream/173464
Upstream sequence
tgcattcctaggataaactccagttggggtttctattttttattaaagattttaattcttattaaatatttatatgttcataaggaatatttgtctggag
Downstream sequence
ttttatttaatgtttttgtctggttttgtcattagggaatgctggcctcgtaaaatgaagtgagaagtgttccctcttgttttcttgaggactttgtata
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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