Basic Information
VIS ID
TVIS44017516
Fusion event
HTLV-1-SRGAP1 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
chr12
Cytoband
q14.2
Reference genome
GRCh37/hg19
Start
64509597/64115817 (Hg38)
End
64509597/64115817 (Hg38)
Orient
+
Location type
Exonic
Target gene
SRGAP1
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-214-3p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-744-5p ; hsa-mir-92b-5p ; hsa-mir-181a-5p ; hsa-mir-1273e ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-8082 ; hsa-mir-6086 ; hsa-mir-4534 ; hsa-mir-377-5p ; hsa-mir-219b-3p ; hsa-mir-3664-3p ; hsa-mir-6746-5p ; hsa-mir-1247-3p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4802-5p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-302f ; hsa-mir-1273f ; hsa-mir-4768-3p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-7856-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-8074 ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-1250-3p ; hsa-mir-1306-5p ; hsa-mir-3161 ; hsa-mir-7843-3p ; hsa-mir-203a-3p ; hsa-mir-4448 ; hsa-mir-4786-3p ; hsa-mir-4293 ; hsa-mir-6796-3p ; hsa-mir-99b-3p ; hsa-mir-99a-3p
Nearest miRNA
hsa-let-7i/Upstream/292090; hsa-mir-1178/Downstream/506692;
Nearest TSS
ENST00000382841/Upstream/4006; ENST00000542841/Downstream/4672;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/271196, chr12-CpG: 54/Downstream/106227
Upstream sequence
accactgcactccagcctaggcagcagtgcaagaacctgtctcaaaaaaTTTTTGTCTATTTTAATTTCATATGAATTTCCATTTGTATTCTACAGCGAC
Downstream sequence
AGCCCATACAGTGAGCACGGTACATTGGAGGAAGTGGACCAAGATGCTGGTACAGAGCCCCACACAAGTGAAGATGGTATGCTCTCCCCTTATGCTATTA
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.
Curate