Basic Information
VIS ID
TVIS44005022
Fusion event
HTLV-1-LETMD1 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
q13.12
Reference genome
GRCh37/hg19
Start
51450849/51057066 (Hg38)
End
51450849/51057066 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
LETMD1
miRNAs that regulate target gene
hsa-mir-877-5p ; hsa-mir-7106-5p ; hsa-mir-4745-3p ; hsa-mir-1538 ; hsa-mir-4736 ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-765 ; hsa-mir-1827 ; hsa-mir-6770-5p ; hsa-mir-1253 ; hsa-mir-3922-5p ; hsa-mir-4756-5p ; hsa-mir-1321 ; hsa-mir-4739 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-4695-5p ; hsa-mir-576-3p ; hsa-mir-4662b ; hsa-mir-4647 ; hsa-mir-4426 ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6869-3p ; hsa-mir-4537 ; hsa-mir-6758-3p ; hsa-mir-6746-3p ; hsa-mir-1292-3p ; hsa-mir-4438 ; hsa-mir-6504-3p ; hsa-mir-7162-5p ; hsa-mir-1229-3p ; hsa-mir-342-3p ; hsa-mir-129-5p ; hsa-mir-3672 ; hsa-mir-4735-5p ; hsa-mir-4775 ; hsa-mir-4794 ; hsa-mir-590-3p ; hsa-mir-664a-5p ; hsa-mir-6789-3p ; hsa-mir-6864-3p ; hsa-mir-6885-3p
Nearest miRNA
hsa-mir-1244-3/Upstream/822854; hsa-let-7i/Downstream/1841823;
Nearest TSS
ENST00000382841/Upstream/695; ENST00000623495/Downstream/405;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/8662, chr12-CpG: 72/Downstream/26010
Nearest cancer related gene
LETMD1(OG, No orient, 0)
Upstream sequence
tattttaaccaagctggtcttgaactcctggcctcaagcaatcctcccatcttggcctcctaaagtgctgggaatacagccgtgaaccactgtgcccggc
Downstream sequence
cTTTTTAAAAATTATTTTTTaattagccaggagtggtggcacatgcctgtaatcccaggtacttgggaggctgagacatgagaattgcttgaacccagga
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