Basic Information
VIS ID
TVIS44009724
Fusion event
HTLV-1-SRGAP1 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
q14.2
Reference genome
GRCh37/hg19
Start
64496245/64102465 (Hg38)
End
64496245/64102465 (Hg38)
Orient
+
Location type
Intronic
Target gene
SRGAP1
miRNAs that regulate target gene
hsa-mir-145-5p ; hsa-mir-214-3p ; hsa-mir-335-5p ; hsa-mir-1-3p ; hsa-mir-744-5p ; hsa-mir-92b-5p ; hsa-mir-181a-5p ; hsa-mir-1273e ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-6836-5p ; hsa-mir-6132 ; hsa-mir-8082 ; hsa-mir-6086 ; hsa-mir-4534 ; hsa-mir-377-5p ; hsa-mir-219b-3p ; hsa-mir-3664-3p ; hsa-mir-6746-5p ; hsa-mir-1247-3p ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4802-5p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-302f ; hsa-mir-1273f ; hsa-mir-4768-3p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-7856-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-8074 ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-1250-3p ; hsa-mir-1306-5p ; hsa-mir-3161 ; hsa-mir-7843-3p ; hsa-mir-203a-3p ; hsa-mir-4448 ; hsa-mir-4786-3p ; hsa-mir-4293 ; hsa-mir-6796-3p ; hsa-mir-99b-3p ; hsa-mir-99a-3p
Nearest miRNA
hsa-let-7i/Upstream/278738; hsa-mir-1178/Downstream/520044;
Nearest TSS
ENST00000382841/Upstream/4847; ENST00000537585/Downstream/9346;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/257844, chr12-CpG: 54/Downstream/119579
Upstream sequence
ACAGTACCTATGTACTTTGTAAAGCagctttattgagatataattctcatactctacaattcatccattaaagagtacaggccagtggtttttagtatag
Downstream sequence
tcacagaattatgcaaccatcaccacaatcaattatagtacatttttattacccccaaaagaaaccccagttagcaaacattggcaattactccccgttt
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