Basic Information
VIS ID
TVIS44004931
Fusion event
HTLV-1-SEMA4F 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
chr2
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
74903310/74676183 (Hg38)
End
74903310/74676183 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2E
Target gene
SEMA4F
miRNAs that regulate target gene
hsa-mir-526b-5p ; hsa-mir-4711-3p ; hsa-mir-431-5p ; hsa-mir-4693-3p ; hsa-mir-216b-3p ; hsa-mir-603 ; hsa-mir-595 ; hsa-mir-6077 ; hsa-mir-6165 ; hsa-mir-873-5p ; hsa-mir-4482-3p ; hsa-mir-7159-3p ; hsa-mir-138-2-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-6716-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/4423178; hsa-mir-10b/Downstream/414629;
Nearest TSS
ENST00000437798/Upstream/1260; ENST00000472302/Downstream/157798;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/21291, chr2-CpG: 29/Downstream/39264
Upstream sequence
TCCATCTAGTGCTACCTCATCAATGTCCTTGCCTCTCTGCTGGACCTGCCTTGACCTGACAGTGTGCCATCtctagtggatgctgcttagttttcatctt
Downstream sequence
acaagagctcttggaagtgttttcacagttgtccactccctctttccttgaaatactttcctcttgctctctatgactgcattctttggtctcctttact
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