Basic Information
VIS ID
TVIS44010917
Fusion event
HTLV-1-SRRM4 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
q24.23
Reference genome
GRCh37/hg19
Start
119446633/119008828 (Hg38)
End
119446633/119008828 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E ; FRA12C
Target gene
SRRM4
miRNAs that regulate target gene
hsa-mir-511-5p ; hsa-mir-431-5p ; hsa-mir-298 ; hsa-mir-570-3p ; hsa-mir-922 ; hsa-mir-3167 ; hsa-mir-2113 ; hsa-mir-3679-3p ; hsa-mir-3942-3p ; hsa-mir-218-5p ; hsa-mir-636 ; hsa-mir-3160-5p ; hsa-mir-205-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-8485 ; hsa-mir-568 ; hsa-mir-4742-3p ; hsa-mir-384 ; hsa-mir-3685 ; hsa-mir-647 ; hsa-mir-6772-3p ; hsa-mir-6762-3p ; hsa-mir-604 ; hsa-mir-4448 ; hsa-mir-4268 ; hsa-mir-4735-5p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6504-5p ; hsa-mir-3064-5p ; hsa-mir-6793-3p ; hsa-mir-7850-5p ; hsa-mir-5004-3p ; hsa-mir-432-3p ; hsa-mir-6867-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-2116-3p ; hsa-mir-449b-3p ; hsa-mir-4524a-3p ; hsa-mir-6757-3p ; hsa-mir-6761-5p ; hsa-mir-5692a
Nearest miRNA
hsa-let-7i/Upstream/2580510; hsa-mir-1178/Downstream/704806;
Nearest TSS
ENST00000382841/Upstream/27333; ENST00000545224/Downstream/105267;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/26823, chr12-CpG: 29/Downstream/145223
Upstream sequence
AACCCCTCCCTCATCAGTGCTGTTTTTCCCCTCCCCCACCAGCCAGAGCCAACGGGCCGCCCCTTCCTCCACCAGCTCTCCGGCCTTTGACACTAATTGA
Downstream sequence
TACGGAGTTTCCCCCTCTAATCCTGCCTCTGCCTGGGGCCCTTGTTCCTAGGGCATCTGCTTGGTGAGAGGAGGAGGAGGCAGGGCCGACCGCCACCCGC
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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