Basic Information
VIS ID
TVIS44007755
Fusion event
HTLV-1-FREM2 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
39322220/38748083 (Hg38)
End
39322220/38748083 (Hg38)
Orient
-
Location type
Intronic
Target gene
FREM2
miRNAs that regulate target gene
hsa-mir-29c-3p ; hsa-mir-615-3p ; hsa-mir-574-5p ; hsa-mir-1277-5p ; hsa-mir-297 ; hsa-mir-493-5p ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-5580-3p ; hsa-mir-6888-3p ; hsa-mir-6873-3p ; hsa-mir-3120-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-3613-3p ; hsa-mir-3675-3p ; hsa-mir-3664-5p
Nearest miRNA
hsa-mir-2276/Upstream/14585579; hsa-mir-1267/Downstream/915951;
Nearest TSS
ENST00000623511/Upstream/60954; ENST00000482551/Downstream/73613;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/59921, chr13-CpG: 49/Downstream/289468
Upstream sequence
ACAGGGACTAAGATCCAACTGAAAACAGGAGGCCGACATAGCTCGTTGTACATTGTTGGTGATTTTAGCTGTGTTTTTTGGAACTGGCCAAAATCCTAAC
Downstream sequence
CTTTGTCTCTTCTGAGATCTGATCCCGCATTTGACTAATTAAAAAAAAGGGCTGGGGCATTATATAGTTAAGTTGCAAAAAAAGCAAAGCGTGTGTTCCA
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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