Basic Information
VIS ID
TVIS44014093
Fusion event
HTLV-1-LIMCH1 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
chr4
Cytoband
p13
Reference genome
GRCh37/hg19
Start
41391387/41389370 (Hg38)
End
41391387/41389370 (Hg38)
Orient
-
Location type
Intronic
Target gene
LIMCH1
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-30a-5p ; hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-877-3p ; hsa-mir-30e-5p ; hsa-mir-3140-3p ; hsa-mir-4462 ; hsa-mir-3148 ; hsa-mir-95-5p ; hsa-mir-888-5p ; hsa-mir-944 ; hsa-mir-641 ; hsa-mir-3617-5p ; hsa-mir-137 ; hsa-mir-6079 ; hsa-mir-6873-3p ; hsa-mir-452-3p ; hsa-mir-6820-3p ; hsa-mir-4261 ; hsa-mir-3164 ; hsa-mir-6505-3p ; hsa-mir-617 ; hsa-mir-676-5p ; hsa-mir-6515-3p ; hsa-mir-1236-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-890
Nearest miRNA
hsa-mir-12113/Upstream/887251; hsa-mir-1243/Downstream/6263299;
Nearest TSS
ENST00000502981/Upstream/3391; ENST00000515847/Downstream/29369;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/27748, chr4-CpG: 32/Downstream/254905
Upstream sequence
TGGAAATGTCTGAGGATTACAGTGAAACTGATAAGGCCCAATTTGAGGTGGTACCTTATACCTCTGCCCTCGTCATCAAAGCACTCAAGAAACCATCAAC
Downstream sequence
AGATGGAAATAGAAAAATAAACTCAGTAGAAATATCACTTTTGATGAGATTGTCAGCATTGCCTGACAAATGTGGCACTGATCTTTAGCCAGAGAACTCT
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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