Basic Information
VIS ID
TVIS44032614
Fusion event
HTLV-1-SGMS1 integration
Validated
No
Detection method
HTS
Data source
Curated
Sample type
Nontumor
Disease
Not given
Quality evaluation
Normal
Reported year
2019
PubMed ID
30307560
Virus Sequence
Virus name
HTLV-1
Subtype
HTLV-1c
Reference genome
KF242506
Host Sequence
Chromosome
chr10
Cytoband
q11.23
Reference genome
NCBI36/hg18
Start
52020398/50590632 (Hg38)
End
52020398/50590632 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10G
Target gene
SGMS1
miRNAs that regulate target gene
hsa-mir-130b-3p ; hsa-mir-124-3p ; hsa-mir-98-5p ; hsa-mir-93-5p ; hsa-mir-33a-5p ; hsa-mir-744-5p ; hsa-mir-142-3p ; hsa-mir-4477a ; hsa-mir-4775 ; hsa-mir-5094 ; hsa-mir-4328 ; hsa-mir-32-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-27b-3p ; hsa-mir-27a-3p ; hsa-mir-181c-5p ; hsa-let-7a-3p ; hsa-let-7b-3p ; hsa-let-7f-1-3p ; hsa-mir-125b-1-3p ; hsa-mir-1273g-5p ; hsa-mir-186-3p ; hsa-mir-300 ; hsa-mir-323a-5p ; hsa-mir-3621 ; hsa-mir-3656 ; hsa-mir-379-3p ; hsa-mir-380-3p ; hsa-mir-381-3p ; hsa-mir-3924 ; hsa-mir-411-3p ; hsa-mir-4495 ; hsa-mir-4666a-3p ; hsa-mir-4733-5p ; hsa-mir-520d-5p ; hsa-mir-524-5p ; hsa-mir-605-5p ; hsa-mir-656-5p ; hsa-mir-876-3p ; hsa-mir-98-3p
Nearest miRNA
hsa-mir-1265/Upstream/1605045; hsa-mir-107/Downstream/708941;
Nearest TSS
ENST00000439456/Upstream/117818; ENST00000609579/Downstream/33345;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/172210, chr10-CpG: 256/Downstream/32080
Nearest cancer related gene
SGMS1(TSG, No orient, 0)
Upstream sequence
ataaaaattacatatatttaaagtgtacaaggtgatggttttatatatgtatacattgtgaaatgattgccacaaactacttaacatatctatcacctca
Downstream sequence
tacaattcccttttttttgaggagttttctggtaaaaacaagaaaacttgctagataaattctaaaagagcCTTACAGTGtagttaccatttgtgtgtgt
Reference
Turpin, J., et al. Impact of Hepatitis B Virus Coinfection on Human T-Lymphotropic Virus Type 1 Clonality in an Indigenous Population of Central Australia. J Infect Dis ,2019,219(4): 562-567.
Curate