Basic Information
VIS ID
TVIS44016589
Fusion event
HTLV-1-PRKN 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
chr6
Cytoband
q26
Reference genome
GRCh37/hg19
Start
161863024/161441992 (Hg38)
End
161863024/161441992 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6E
Target gene
PRKN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-26b-5p ; hsa-mir-3187-3p ; hsa-mir-1303 ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-193b-5p ; hsa-mir-4755-3p ; hsa-mir-483-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-10398/Upstream/2677239; hsa-mir-1913/Downstream/5067362;
Nearest TSS
ENST00000381078/Upstream/167931; ENST00000544266/Downstream/127428;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/449460, chr6-CpG: 76/Downstream/203893
Nearest cancer related gene
PRKN(TSG, No orient, 0)
Upstream sequence
GGCGGCTGGCAAAGGGGCTACCATGGAGGAATGGTCTTCAGGAAGTGGATAAAGCTGGCCCTGCCTCATGCCAATCAGCCCAGCAAGCAGGGAGGACATC
Downstream sequence
GCCAATGAGTTTCTGGTTTTCACTTCAGAAGTTATAGAGACGATGTAAGATGAAATACTGTTCAGTGGGCTAATGCAGCCACACGAGTGAGTTTTATTTT
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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