Basic Information
VIS ID
TVIS44033661
Fusion event
HTLV-1-CSMD1 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
chr8
Cytoband
p23.2
Reference genome
NCBI36/hg18
Start
3593205/3748275 (Hg38)
End
3593205/3748275 (Hg38)
Orient
+
Location type
Intronic
Target gene
CSMD1
miRNAs that regulate target gene
hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-567 ; hsa-mir-5011-5p ; hsa-mir-4704-5p ; hsa-mir-5583-3p ; hsa-mir-4517 ; hsa-mir-1277-5p ; hsa-mir-338-5p ; hsa-let-7c-3p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-3674/Upstream/1671635; hsa-mir-10400/Downstream/2873849;
Nearest TSS
ENST00000518652/Upstream/39779; ENST00000522905/Downstream/283825;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/725849, chr8-CpG: 256/Downstream/1243171
Nearest cancer related gene
CSMD1(TSG, No orient, 0)
Upstream sequence
GAGAGAAATTAAAGTAGATATTTAGGAAAAGTGGTTACGTGTTTCTGATTTGAATGAGTTATATTATTAAAAACTATTTTTTTTCATGGAGGTTTAGTGG
Downstream sequence
TTTTAAGAATTATTTAAAGGTTATAATATATTTCAGTAATTTATTTTGATTGAAACAATACTTCATGCATCCATACCTACCTAATAGTTCCCTCAAATAC
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