Basic Information
VIS ID
TVIS44012153
Fusion event
HTLV-1-RHOF integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24735963
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
122227144/121789238 (Hg38)
End
122227144/121789238 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
RHOF
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-7977 ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-3656 ; hsa-mir-3975 ; hsa-mir-383-3p ; hsa-mir-525-3p ; hsa-mir-524-3p ; hsa-mir-1245b-3p ; hsa-mir-1273e ; hsa-mir-1273f ; hsa-mir-1293 ; hsa-mir-3173-3p ; hsa-mir-323a-5p ; hsa-mir-3689d ; hsa-mir-4477b ; hsa-mir-4483 ; hsa-mir-4685-5p ; hsa-mir-5003-3p ; hsa-mir-6131 ; hsa-mir-6134 ; hsa-mir-665 ; hsa-mir-6756-5p ; hsa-mir-6766-5p ; hsa-mir-6837-5p ; hsa-mir-6840-3p ; hsa-mir-6851-5p ; hsa-mir-6880-5p ; hsa-mir-6888-5p ; hsa-mir-6891-5p ; hsa-mir-3165 ; hsa-mir-363-5p ; hsa-mir-6745
Nearest miRNA
hsa-let-7i/Upstream/344886; hsa-mir-3612/Downstream/906669;
Nearest TSS
ENST00000382841/Upstream/12863; ENST00000609067/Downstream/4122;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/76053, chr12-CpG: 132/Downstream/3759
Upstream sequence
aggatcacttgagcccaagaggctgtggctgcaatgagttatgatcatgctatggcactccagcctgggtgacagagcgagaccctgtctctaaCCATTC
Downstream sequence
CCCACCTCAAAAAAAAACCCAGGAATTACATGCAAAGGATGCACGTGCTTCTGGTGAGGAAGTCTCTAGGCCTGGGCTCCCCCTAGAGCCGCCCATCGTC
Reference
Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.
Curate