Basic Information
VIS ID
TVIS44008128
Fusion event
HTLV-1-RAB28 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
p15.33
Reference genome
GRCh37/hg19
Start
13401405/13399781 (Hg38)
End
13401405/13399781 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4D
Target gene
RAB28
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-375
Nearest miRNA
hsa-mir-12113/Upstream/1616533; hsa-mir-12115/Downstream/228084;
Nearest TSS
ENST00000502981/Upstream/18187; ENST00000510907/Downstream/74541;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1970149, chr4-CpG: 97/Downstream/84117
Upstream sequence
ctccacttatatttatatgtctttcttcttccatgaaatttctatttatgttttatgtcctttttttaacgaacggcctttttcttgtagatttgaaaaa
Downstream sequence
gtataccagtctttttcagttattttgtgttacacacaccttctcccagtttgtggcttgtctttaattctttactgtatcatttcatagaaacaaatgt
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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