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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatccttctggtttttgagtcttgtggttgaaccataccgtttgtcagtgtgctttaagattgggaatttgactttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag

Basic information

species Vitis vinifera
transcript Vv02s0025g03480.t01
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g03480.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os05g44560.1 (Oryza sativa), 5'ss of exon 17
CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatccttctggtttttgagtcttgtg-gttgaaccataccgtttgtcagtgtg-ctttaagattgggaatttgact-ttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag
|| || ||| | || ||||| || |||||||| || ||||||| | |||||||||||||||| || ||||| ||||| ||||| |||||||||||||| ||||   |    | | |||    | || ||   || ||   | |    | ||   |||  || |||  ||   || |   || ||| ||                                                        
CTGTCTGCTTTGGGTGATGTGATTTTTGCTTTGGCGCAAAAGAATGCTCATGTGCCATACAGGAACAGCAAGCTAACACAAGTTCTTCAAAGCTCTTTAGgtaatcaattatttagttgaaaaatcatgcatgtggagttagatttatggtttttgtaactataatcttataaaataatctcttgcag--------------------------------------------------------

upper sequence: Vv02s0025g03480.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os02g13570.1 (Oryza sativa), 5'ss of exon 2
-------------------------------------------------CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatccttctggtttttgagtcttgtggttgaaccataccgtttgtcagtgtgctttaagattgggaatttgactttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag
                                                  |  | |||||||| ||||| |||||| ||||| ||||||||| | ||||||| ||||||||||||||||| || || |||||||| || |  ||  ||||||  | | ||||      |||||   | |  || |  ||| || |         ||  || | ||    | ||||| | || || ||   |          |    | ||||                            
TGCAGTTACAGGGGACAGGCTCAAAGAAGCACAGCACATCAACAAGTCTTTGGCTGCTCTTGGGGATGTTATATTTTCTTTATCACAAAAGAATGCTCATgtaccatacagaaatagcaagctcacacaagtcctgcagacttcactgggtat-tctgcttca----cttgagaactat--ttta--catgccatacacggagttgtattgacatgcatagtttga-tatgcaggtgggcatgcaaaaaccctaatgtttgtgcag------------------------

upper sequence: Vv02s0025g03480.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os01g54080.1 (Oryza sativa), 5'ss of exon 17
CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgta-catatccttctggtttttgagtcttgtggttgaaccataccgtttgtcagtgtgctttaagattgggaatttgactttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag
|| || |||||||||||||| || ||| |||| || || |||| | | ||||||||||| ||||| ||||| ||||||||||| ||||| || ||||| |||| |||||  || | | |    ||   |||   || |       | ||   ||| ||| |  |  ||  |   ||    ||||||                                                        
CTCTCTGCTCTTGGAGATGTCATTTTTTCTTTGGCCCAGAAGAATGCCCATGTGCCATATAGAAACAGCAAGCTAACTCAAGTTCTTCAGAGTTCTTTAGgtaacatatagttgttgat----agatgtgtacgtggatag----gcttactagtttgcct--aacttatgcgctt--tcttgtag--------------------------------------------------------

upper sequence: Vv02s0025g03480.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA08G01800.1 (Glycine max), 5'ss of exon 18
CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatccttctggtttttga-gtcttgtggttgaaccataccgtttgtcagtgtgctttaagattgggaatttgactttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag
|| || || || |||||||||||||||||| || ||||||||||| | ||||||||||| |||||||| ||| | || ||| | ||||| || || || ||||  | |     |  ||  |      ||   |||     |||     | ||| | || ||  |  |||   |||| |   | | |  || |    || ||    ||   | | ||    ||  ||| |    | |||||||
CTGTCTGCACTAGGAGATGTAATATTTGCTCTATCACAAAAGAGTTCACATGTGCCATATAGAAATAGTAAATTGACCCAACTTCTTCAGAGTTCGTTAGgtaattgttgccattattggtatcaatttacagttttgttatatttggtttcatt-tgtttgcattttg---atttaagcatattgcagtcatggcttactaaattgcaatagctt---tgtcccttgta---attttatag

upper sequence: Vv02s0025g03480.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: GLYMA05G37800.1 (Glycine max), 5'ss of exon 17
CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatccttctggtttttgagtcttgtggttgaaccataccgtttgtcagtgtgctttaagattgggaatttgactttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag
||||| || || |||||||||||||||||| || |||| |||||| | || |||||||| |||||||| ||| | || ||| | ||||| || || || ||||  | |  | |   | || |  ||   |    | |   |    ||||      |   ||   |||  || ||| |   | | |  || |    || ||    ||   | | ||   |  || | | |  ||        
CTATCTGCACTAGGAGATGTAATATTTGCTCTATCACAGAAGAGTTCACACGTGCCATATAGAAATAGTAAATTGACCCAACTTCTTCAGAGTTCGTTAGgtaattgt--tgccattattggtatcaatttacagtattgttatatttggtttcatttgtttgcattttga-tttaagcatattgcagtcatggcttactaaattgcaatagctttgtccgttgtatatgatag-------

upper sequence: Vv02s0025g03480.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: AT1G63640.1 (Arabidopsis thaliana), 5'ss of exon 17
CTATCAGCTCTTGGAGATGTAATATTTGCTTTAGCACAAAAGAGTCCTCATGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatccttctggtttttgagtcttgtggttgaaccataccgtttgtcagtgtgctttaagattgggaatttgactttgtagttgttaacattttcttgcctgggcttgtttgaccgtttctttttcctactttatag
 | ||||| ||||| ||||| |||||||||||||| || ||||  |||||||| || |||||||| |||||| | ||||||||||||||||| ||||||||||  ||||  |||      |||      | | |          |||| |  || |    ||| ||||    ||   |||| | |||||| |  ||  |||  ||   ||   ||     ||||||               
TTGTCAGCACTTGGGGATGTCATATTTGCTTTAGCGCACAAGAACCCTCATGTTCCTTACAGAAACAGCAAATTGACTCAAGTCCTTCAAAGTTCTTTGGgtaagtatcactct-----ctgaagaaaatagat--------ttgtttatatgtattgcataaaattgatgttt--gctttat-gttgttga--ttcccttagctattctctcttt----tttcttag-------------

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|351015024|gb|FQ444313.1|FQ444313
EST:     TGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGG                         GAGGTCAAGCGAAGACCCTTATGTTTGTACAGCTTAATCCTGATGTGGATT
genomic: TGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatcc ... tactttatagGAGGTCAAGCGAAGACCCTTATGTTTGTACAGCTTAATCCTGATGTGGATT
EST: gi|37187741|gb|CF607094.1|CF607094
EST:     TGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGG                         GAGGTCAAGCGAAGACCCTTATGTTTGTACAGCTTAATCCTGATGTGGATT
genomic: TGTGCCATACAGAAATAGCAAACTAACTCAAGTCCTTCAAAGCTCTTTGGgtacatatcc ... tactttatagGAGGTCAAGCGAAGACCCTTATGTTTGTACAGCTTAATCCTGATGTGGATT