Basic Information
VIS ID
TVIS44006374
Fusion event
HTLV-1-SLITRK4 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
chrX
Cytoband
q27.3
Reference genome
GRCh37/hg19
Start
142711342/143623537 (Hg38)
End
142711342/143623537 (Hg38)
Orient
-
Location type
UTR3
Fragile sites / regions
FRAXA
Target gene
SLITRK4
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-568 ; hsa-mir-222-5p ; hsa-mir-223-5p ; hsa-mir-16-1-3p ; hsa-mir-511-3p ; hsa-mir-10a-3p ; hsa-mir-4422 ; hsa-mir-6835-3p ; hsa-mir-142-5p ; hsa-mir-340-5p ; hsa-mir-5590-3p ; hsa-mir-324-5p ; hsa-mir-188-5p ; hsa-mir-6866-3p ; hsa-mir-1324 ; hsa-mir-4789-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-190a-3p ; hsa-mir-8064 ; hsa-mir-5011-5p ; hsa-mir-4643 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-1277-5p ; hsa-mir-377-3p ; hsa-mir-342-3p ; hsa-mir-3924 ; hsa-mir-4789-5p ; hsa-mir-5580-3p ; hsa-mir-129-5p ; hsa-mir-103a-2-5p ; hsa-mir-2681-5p ; hsa-mir-30a-3p ; hsa-mir-30d-3p ; hsa-mir-30e-3p ; hsa-mir-3140-3p ; hsa-mir-3942-3p ; hsa-mir-5003-3p ; hsa-mir-5100
Nearest miRNA
hsa-let-7f-2/Upstream/2697306; hsa-mir-105-1/Downstream/2369213;
Nearest TSS
ENST00000429181/Upstream/106062; ENST00000423667/Downstream/10966;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/2446317, chrX-CpG: 130/Downstream/10057
Upstream sequence
ttaaaataatttttaaaaattaaaaaaaaCCATCATTTCCTATAAGATAAACAACACAATTTCCCTTCCTCGATTTTCCCTTTTAAAACACAATCCTATC
Downstream sequence
AACCAGTAGAAACTAAAAAGACATtaaataaataaataaataaataaataaaACAAAATAAAATTCCAAATTAGATTAAGGGCAGTTTTGTACAAAGTAA
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