Basic Information
VIS ID
TVIS44005749
Fusion event
HTLV-1-CACNA1C 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
chr12
Cytoband
p13.33
Reference genome
GRCh37/hg19
Start
2354630/2245464 (Hg38)
End
2354630/2245464 (Hg38)
Orient
+
Location type
Intronic
Target gene
CACNA1C
miRNAs that regulate target gene
hsa-mir-133a-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-4780 ; hsa-mir-6780b-3p ; hsa-mir-3938 ; hsa-mir-6791-5p ; hsa-mir-6778-5p ; hsa-mir-450a-2-3p ; hsa-mir-6857-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-6810-5p ; hsa-mir-2110 ; hsa-mir-3147 ; hsa-mir-4425 ; hsa-mir-185-3p ; hsa-mir-4283 ; hsa-mir-4489 ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-5001-5p ; hsa-mir-762 ; hsa-mir-4498 ; hsa-mir-4492 ; hsa-mir-7106-5p ; hsa-mir-920 ; hsa-mir-6726-5p ; hsa-mir-5591-5p ; hsa-mir-4300 ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-4731-5p ; hsa-mir-6754-5p ; hsa-mir-4487 ; hsa-mir-4441 ; hsa-mir-4270 ; hsa-mir-29a-3p ; hsa-mir-208a-3p ; hsa-mir-208b-3p ; hsa-mir-103a-3p
Nearest miRNA
hsa-mir-3649/Upstream/585084; hsa-let-7i/Downstream/4718235;
Nearest TSS
ENST00000382841/Upstream/21985; ENST00000491104/Downstream/258972;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/15015, chr12-CpG: 24/Downstream/433984
Upstream sequence
TTGACTGAACAGTAAAGGGGAGAAGCAAACACACATGAGATCTCTGAGCAGTGTGTTTCAGGTGCTTTATAATAAACCTCTccttgccgggagagtgtca
Downstream sequence
tcccatttcacagaccaggcaactgaggctcagagcggGTGGTCTAGAATGTGCCCATGCTTGGGCTCCTTTCCTTGTTCCTCCCAAAGGCAGCAGTTAT
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