Basic Information
VIS ID
TVIS44008547
Fusion event
HTLV-1-FAM193A 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
p16.3
Reference genome
GRCh37/hg19
Start
2650643/2648916 (Hg38)
End
2650643/2648916 (Hg38)
Orient
+
Location type
Intronic
Target gene
FAM193A
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-6090 ; hsa-mir-182-5p ; hsa-mir-6816-5p ; hsa-mir-3196 ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-760 ; hsa-mir-6809-5p ; hsa-mir-31-5p ; hsa-mir-7155-5p ; hsa-mir-637 ; hsa-mir-8089 ; hsa-mir-4700-5p ; hsa-mir-4667-5p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-6741-3p ; hsa-mir-212-5p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-29c-3p ; hsa-mir-29b-3p ; hsa-mir-29a-3p ; hsa-mir-6856-3p
Nearest miRNA
hsa-mir-4800/Upstream/398760; hsa-mir-12113/Downstream/3274359;
Nearest TSS
ENST00000502981/Upstream/23454; ENST00000506904/Downstream/5505;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/111222, chr4-CpG: 28/Downstream/83014
Upstream sequence
AGGAAGTGGGCATCTTCGGCAGAGGCTCTTCAGGGCTGTGGCCGTGCAGGAGGGCCAGTAGTGTGTCCAGGTCACCACTCCCTGGGATGTTCTTGACTTG
Downstream sequence
GGTCCCAGGGAGAACCCTGCACGGCAGTCAACACCAGAATGTCCCGGATCTGCCCCATGAGTCTTTTCCCTCCCTACCTGCAAAATGAGATAATTATGTT
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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