Basic Information
VIS ID
TVIS44010213
Fusion event
HTLV-1-ALCAM 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
chr3
Cytoband
q13.11
Reference genome
GRCh37/hg19
Start
105245919/105527075 (Hg38)
End
105245919/105527075 (Hg38)
Orient
+
Location type
Intronic
Target gene
ALCAM
miRNAs that regulate target gene
hsa-mir-192-5p ; hsa-mir-215-5p ; hsa-mir-148b-3p ; hsa-mir-483-5p ; hsa-mir-323a-5p ; hsa-mir-148a-3p ; hsa-mir-152-3p ; hsa-mir-9-5p
Nearest miRNA
hsa-let-7g/Upstream/2002959; hsa-mir-12124/Downstream/4075753;
Nearest TSS
ENST00000440867/Upstream/13750; ENST00000460954/Downstream/4160;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/157580, chr3-CpG: 84/Downstream/341360
Upstream sequence
TTTTTATTCTAACTACAGCCCCTGGCAAATGACCTTGCTATCTTTAATGCAGGTTTGCTTGTTTAATTTTAAGCTATTCCTCATATGCAAGAAATCATAC
Downstream sequence
CTATGAATCAGCCCAAATCCAAATAAGTGGCATTCTTAGTCACCACTAATCAGCTTTTTTCTTTTAGTTGAATGGCATCAAAATCAAACTGTGTTTTTAT
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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