Basic Information
VIS ID
TVIS44031389
Fusion event
HTLV-1-RAPGEF6 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
chr5
Cytoband
q31.1
Reference genome
NCBI36/hg18
Start
130845685/131482093 (Hg38)
End
130845685/131482093 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5C
Target gene
RAPGEF6
miRNAs that regulate target gene
hsa-mir-21-5p ; hsa-mir-940 ; hsa-mir-629-3p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-6881-3p ; hsa-mir-188-3p ; hsa-mir-4268 ; hsa-mir-130b-5p ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-766-3p ; hsa-mir-877-3p ; hsa-mir-4267 ; hsa-mir-6736-3p ; hsa-mir-4698 ; hsa-mir-19b-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-10397/Upstream/2084946; hsa-mir-103a-1/Downstream/735756;
Nearest TSS
ENST00000502646/Upstream/9173; ENST00000446275/Downstream/26064;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/217380, chr5-CpG: 85/Downstream/152629
Upstream sequence
TACAAGTAAGATAGAAATGGATAAAGCCTTAAGAATGGATTAAAATACTTACAACTTGGTATTCACTTGTAAATCTGGACTGATTTGAGGGTTTCAACAG
Downstream sequence
AAGGATGATACCACATTACCAAAGCACAGCGCAAGTTTATGAAAAGCACATTTTTCTGCTATCAAAATGATGGAGACTTTTTAGAAGTTACCTTCCATAA
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