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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATGTGGAAGCATGGCTTCTGCTTTGGAACTATTAGCTGCATCTCCCTATTGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactttgttgatcattgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacag

Basic information

species Vitis vinifera
transcript Vv03s0038g04500.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 5'ss of exon 2
TATGTGGAAGCATGGCTTCTGCTTTGGAACTATTAGCTGCATCTCCCTATTGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactttgttgatcattgctgtattaaggagctt--tttcgttctttcagttgattatcttttcaatacag------------------------------
| ||||||||||||   ||||| ||||||||| || |  || |||| || ||| | |||||||| ||||| ||||||||||| ||||| ||  |||||||||| |   ||   |  |       | ||  || |  |   ||  ||| |||| ||  | |  |   ||||  |                                
TCTGTGGAAGCATGAACTCTGCATTGGAACTACTATCATCAACTCCATACTGTTTATCCATTGAGAAAGTTTTTGTTATAGGGGGTGGACAAGTACTAAGgtgagctgttaactt-ttgccaaagcatctagtatgtaaattgtgttgtttctgtatact-ccacctcaactctattcacctttatctgtaaaatttcactgtag

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 1
TATGTGGAAGCATGGCTTCTGCTTTGGAACTATTAGCTGCATCTCCCTATTGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactttgttgat-cattgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacag--------------------
|||||||||||||| | ||||| |||||||| |||||||| ||||| || | |||||| ||||| ||||| ||||||||||||||||| |||||| | ||||   |  ||  || |   |||    | || |   |||  ||| || |     |    | | | ||   || ||                    
TATGTGGAAGCATGTCGTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTATTTGTTATAGGAGGTGGTCAGATATTTAGgtacatctttctttaaaatattttgttcttcatccgctccttccttttcatgttaagctctttctttgttatagctgataattttcatgtacag

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G01280.1 (Glycine max), 5'ss of exon 2
TATGTGGAAGCATGGCTTCTGCTTTGGAACTATTAGCTGCATCTCCCTATTGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactttgttgatcattgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacag--------------------
|||||||||||||| ||||||| |||||||| |||||||| ||||| || | |||||| ||||| ||||| ||||||||||| ||||| |||||| | ||||   |  ||  || |  | |  | | | |    |||  ||| || |     |    | | | ||   || ||                    
TATGTGGAAGCATGTCTTCTGCATTGGAACTGTTAGCTGCTTCTCCTTACTCTCTGTCAATTGAGAAAGTTTTTGTTATAGGGGGTGGTCAGATATTTAGgtacatcattctttaa--aatattttctcatat-gctccttccttttcatgttaagctctttctttgttatagctgataattttcacgtacag

upper sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 5'ss of exon 4
TATGTGGAAGCATGGCTTCTGCTTTGGAACTATTAGCTGCATCTCCCTATTGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactttgttgatca----ttgctgtattaaggagctttttcgttctttcagttgattatcttttcaatacag---
  ||  | ||||| | ||||||| | ||  ||||||||||| |||| | | ||||||||||||| ||||||||||| |||||||||||| | ||| | ||||||||  | | | |   |     | |  | ||  |    |||     ||||| |     |||| |||    ||  |   
CTTGCAGTAGCATAGATTCTGCTCTAGACTTATTAGCTGCACCTCCGTTTAGTCTGTCCATTGAGAAAGTGTTTGTAATAGGAGGTGGCGACATATTGAGgtgtgtgttctatagtcaagactctcccttttttcgtgattttaattctctttgatcgtgttatgtttgttgtattgtag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|161712791|gb|FC062015.1|FC062015
EST:     TGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAG                         GGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATCACAGAAATTGA
genomic: TGTCTGTCCATTGAAAAAGTGTTTGTTATAGGAGGTGGCCAGATACTAAGgtgtgtactt ... ttcaatacagGGAAGCTCTCAATGCACCTGGATGTGATGCTATCCACATTACAGAAATTGA