Basic Information
VIS ID
TVIS44005667
Fusion event
HTLV-1-SCARA3 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
chr8
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
27505984/27648467 (Hg38)
End
27505984/27648467 (Hg38)
Orient
-
Location type
Intronic
Target gene
SCARA3
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-615-3p ; hsa-mir-338-3p ; hsa-mir-4524a-3p ; hsa-mir-4786-5p ; hsa-mir-5683 ; hsa-mir-576-3p ; hsa-mir-6741-5p ; hsa-mir-769-5p
Nearest miRNA
hsa-mir-124-1/Upstream/37716; hsa-mir-10400/Downstream/53206;
Nearest TSS
ENST00000518652/Upstream/14286; ENST00000521510/Downstream/84871;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/14209, chr8-CpG: 54/Downstream/123769
Upstream sequence
aggccaaggtgggtggatcacggtcaggagatggagaccatcctggctaacatggtgaaacctcgtttctactaaaaatacaaaaaattagccgggcgtg
Downstream sequence
gtggcgggcacctgtagtcccagctactcgggaggctgaggcaggagaatggcgtgaacccaggtggcagagcttgcagtgagccgagatagcaccactg
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.
Curate