Basic Information
VIS ID
TVIS44005878
Fusion event
HTLV-1-RAB30 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
chr11
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
82773715/83062673 (Hg38)
End
82773715/83062673 (Hg38)
Orient
+
Location type
Intronic
Target gene
RAB30
miRNAs that regulate target gene
hsa-mir-200a-3p ; hsa-mir-16-5p ; hsa-mir-29c-3p ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-98-5p ; hsa-mir-26b-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-4460 ; hsa-mir-4727-3p ; hsa-mir-1273g-5p ; hsa-mir-376a-2-5p ; hsa-mir-656-5p ; hsa-mir-140-5p ; hsa-mir-6718-5p ; hsa-mir-203b-5p ; hsa-mir-7845-5p ; hsa-mir-3591-5p ; hsa-mir-142-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-186-3p ; hsa-mir-4733-5p ; hsa-mir-4255 ; hsa-mir-4762-3p ; hsa-mir-218-5p ; hsa-mir-548aw ; hsa-mir-3192-3p ; hsa-mir-4668-5p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-4445-5p ; hsa-mir-6766-3p ; hsa-mir-4782-3p ; hsa-mir-219a-5p ; hsa-mir-508-3p ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-29a-5p ; hsa-mir-3920 ; hsa-mir-412-5p ; hsa-mir-6735-3p ; hsa-mir-6851-3p ; hsa-mir-5580-5p ; hsa-mir-5008-5p ; hsa-mir-3922-3p ; hsa-mir-3176 ; hsa-mir-212-5p ; hsa-mir-6811-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-10392/Upstream/1171837; hsa-let-7a-2/Downstream/3215660;
Nearest TSS
ENST00000527297/Upstream/26979; ENST00000534499/Downstream/8789;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/160871, chr11-CpG: 59/Downstream/94245
Upstream sequence
TGCTCAGTTTGAGAGTTTGAGACATGAACCCTTTGACAACAGAAtatatttatgtgcacataaatttgccaaagtccttttatacacaacatctcctttg
Downstream sequence
agccccacaataatccccattttatagataaagaaactgaggctcagccaggcatggtggctcacacctgtaatcccagcactttgagaggctgaagtgg
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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