Basic Information
VIS ID
TVIS44004489
Fusion event
HTLV-1-TMCC3 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
q22
Reference genome
GRCh37/hg19
Start
95008210/94614434 (Hg38)
End
95008210/94614434 (Hg38)
Orient
+
Location type
Intronic
Target gene
TMCC3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-92a-3p ; hsa-mir-26a-5p ; hsa-mir-6864-5p ; hsa-mir-6126 ; hsa-mir-4493 ; hsa-mir-605-3p ; hsa-mir-4635 ; hsa-mir-4511 ; hsa-mir-3133 ; hsa-mir-548x-3p ; hsa-mir-5582-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac
Nearest miRNA
hsa-let-7i/Upstream/43082; hsa-mir-1178/Downstream/219964;
Nearest TSS
ENST00000382841/Upstream/117992; ENST00000551792/Downstream/1627;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/153903, chr12-CpG: 90/Downstream/35341
Upstream sequence
TCACTGGTTACACACAGGAATGTGAAGCATGCAGTCAGGAGAAAGCCCTGTAATTGCCCCCAGGCCACAAGTAATCCCCCTGGAAGCAAAAACAACCTCC
Downstream sequence
TCTCCATAAACTGACTAGAAAGGAACAGGTGGGAAGGACAGCAGAGGGGTGGCCAGCATTGTCAGGGTTTCTCCAGAATGGCCTGTCAACCAGGACAAGC
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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