Basic Information
VIS ID
TVIS44010039
Fusion event
HTLV-1-SH3KBP1 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
chrX
Cytoband
p22.12
Reference genome
GRCh37/hg19
Start
19851007/19832889 (Hg38)
End
19851007/19832889 (Hg38)
Orient
-
Location type
Intronic
Target gene
SH3KBP1
miRNAs that regulate target gene
hsa-mir-1914-5p ; hsa-mir-5692a ; hsa-mir-218-5p ; hsa-mir-1305 ; hsa-mir-607 ; hsa-mir-4775 ; hsa-mir-590-3p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-335-3p ; hsa-mir-19b-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-3690-1/Upstream/2406935; hsa-let-7f-2/Downstream/184199;
Nearest TSS
ENST00000429181/Upstream/33138; ENST00000424026/Downstream/54570;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/317246, chrX-CpG: 157/Downstream/54020
Upstream sequence
tgcggagaCCTTCTGGTCAAGACATCACCTCCATTTCACAGCAAGGAGTCCTCTCCGAGCAGGGGGAGGGTCAGGTTCCAGCTCTCGCGTGGGCAGTTCC
Downstream sequence
TACACTGCATTTCCCTGCCCTGGTTCCCTCCACAGTCACTGACAGCGCGCCAGCCCTATGCTATGAGCAAATTCCATAGGCTTTCTCAGTGCCTTCCAAC
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.
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