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VISDB
Viral Integration Site DataBase
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TVIS44004310
Basic Information
VIS ID
TVIS44004310
Fusion event
HTLV-1-SMIM24 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
3478945/3478947 (Hg38)
End
3478945/3478947 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
SMIM24
Nearest miRNA
hsa-mir-1227/Upstream/848154; hsa-let-7e/Downstream/482467;
Nearest TSS
ENST00000633603/Upstream/459;
ENST00000588327/Downstream/141;
Nearest CpG islands
None/Target,
chr19-CpG: 112/Upstream/14587
,
chr19-CpG: 20/Downstream/2837
Upstream sequence
AGCAAGACCAAATAGACGATGAACAGGAAGCCGACTACCGCAGCCAGGCCCACCAGCCACGGCTTCAGGCGATGCTCCGTGGCTGCAGGAAGTTGGGGAG
Downstream sequence
GTTCGACTCAGAGGAAGAAAAGGTCAGAAGACCCCCTTCCCCCACCACCCTAGCAAGGAGAGAGAGAAGGTCACTGGGGGTGCTCCGACAGAGGGGGTAT
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.
Sample Information
×
Sample name
ATL63
Sample type
Nontumor
Gender
Female
CpG Island Information
×
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