Basic Information
VIS ID
TVIS44006350
Fusion event
HTLV-1-SDK1 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
chr7
Cytoband
p22.2
Reference genome
GRCh37/hg19
Start
3542577/3502945 (Hg38)
End
3542577/3502945 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
SDK1
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-625-5p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-3202 ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-3179 ; hsa-mir-1252-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-6794-5p ; hsa-mir-4716-3p ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-6758-5p ; hsa-mir-128-2-5p ; hsa-mir-128-1-5p ; hsa-mir-6780b-5p ; hsa-mir-4271 ; hsa-mir-4725-3p ; hsa-mir-6877-5p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-6784-5p ; hsa-mir-6892-3p ; hsa-mir-6891-5p ; hsa-mir-6783-5p ; hsa-mir-3173-3p
Nearest miRNA
hsa-mir-339/Upstream/975800; hsa-mir-10399/Downstream/1285620;
Nearest TSS
ENST00000635602/Upstream/200493; ENST00000478527/Downstream/140839;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/200844, chr7-CpG: 21/Downstream/611068
Upstream sequence
ttgagcaaattgttttcttgttctgtaacatacttttcttggccataaaattgagatgaAGATGTTAATGCTGATCTAACCAAATGATTTTGATATTATA
Downstream sequence
GGGATTAATGAACTGTTTGTAAAATATTTTGTTGTTCTTGGAATTACTTACACTGGTGATGTTATTAATATTATGTACTATGTTCACAGTGGACTAATGA
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