Basic Information
VIS ID
TVIS44029082
Fusion event
HTLV-1-SHC4 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
chr15
Cytoband
q21.1
Reference genome
NCBI36/hg18
Start
47016665/48937176 (Hg38)
End
47016665/48937176 (Hg38)
Orient
-
Location type
Intronic
Target gene
SHC4
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-552-5p ; hsa-mir-6516-5p ; hsa-mir-302c-5p ; hsa-mir-455-3p ; hsa-mir-6499-3p ; hsa-mir-3143 ; hsa-mir-543
Nearest miRNA
hsa-mir-10393/Upstream/3504047; hsa-mir-11181/Downstream/231894;
Nearest TSS
ENST00000557528/Upstream/59040; ENST00000559620/Downstream/1060;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/58663, chr15-CpG: 47/Downstream/25611
Upstream sequence
GCTGGGCATGGCCAGAAAAGTTGTGCTATGTGATTCATCATGTGCCTTTGCACAAATAGAGATGTATATTCTGTTTAGTCGCAAAAGTATTATATCATTT
Downstream sequence
GAGCCTCATAATGAAACTGTGATGAGACCTGAATAGGTAGGTGATCTCCttttttatttttatttttgtagagatggggtctcattatgttgcccaggtg
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