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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgttttggtatttccaaacaacacttctttgtgaataccatgtgataagtggagagagtataaaaagaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag

Basic information

species Vitis vinifera
transcript Vv16s0013g00220.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0013g00220.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G035928_T01 (Zea mays), 5'ss of exon 2
TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgttttg-gtatttccaaacaacacttctttgtgaataccatgtgataagtggagagagtataaaaagaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag
| ||| | || ||||||||||||||||| ||||||||| |||||||||| || |||||||| ||||   | ||||| || |  ||||| ||||||||||||| | || | ||  | ||   ||    |    |||  ||     |  || |              | |     | |  | |          ||  ||||                                                                                               
TAGTTCGACCACTTCCTCATGGAGTTAAACTTCATGCACTCATTGATGCTTGTCATAGTGGGACTGCACTTGATTTGCCTTATCTCTGCAGAATGAACAGgtaatttatattatgcatggtcatttgatttgtcta-gtagggcctctgaggcttcccctcccc-tgtgtgctggagaggaggcttgagggtttggtcttgg--------------------------------------------------------------------------------------------

upper sequence: Vv16s0013g00220.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G155422_T01 (Zea mays), 5'ss of exon 2
TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagtt-gttttg-gtatttccaaacaacacttctttgtgaataccatgtgataagtggagagagtataaaaagaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag
| ||| | || ||||||| ||||||||| ||||||||| |||||||||| || |||||||| ||||   | ||||| || | |||||| ||||||||||||| | ||  | ||  | ||  |||    |  ||| ||| ||    ||   | |    |||               | ||||| | |  |   |||||    || |||  |||||| | |                                                                            
TAGTTCGACCACTTCCTCGTGGAGTTAAACTTCATGCATTCATTGATGCTTGTCATAGTGGAACTGCACTTGATTTGCCTTACCTCTGCAGAATGAACAGgtaactttatattatgcatggccatttgat-cttttttatgttctcccgcttacccttggc--------------atatgaagagctgt---ttctgaaccta-atgggaactttatta----------------------------------------------------------------------------

upper sequence: Vv16s0013g00220.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgttttggtatttccaaacaacacttctttgtgaat--accatgtga----taagtggagagagtataa-aaagaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag
||||||| ||| |||||||||||| |||||| |||||| | |||||||| |||||||||||||||||  ||||||| ||||| || || ||||||||||||| |  |  |   | |  ||     |    ||||   ||  |  ||    |||    |   |     || | ||  || |  |||   ||  | |||||||                                                                                                   
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttctaaagaaagtctgt-tatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct---------------------------------------------------------------------------------------------------

upper sequence: Vv16s0013g00220.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GLYMA01G10880.1 (Glycine max), 5'ss of exon 2
TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgttttggtatttccaaacaacacttctttgtgaat--accatgtga----taagtggagagagtataaaaa--gaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag
|||| || ||| |||||||||||| |||||| |||||| | |||||||| |||||||||||||||||  ||||||| ||||| || || ||||||||||||| |  | | |    ||   |    |    ||||   ||  |  ||  | ||     |   |     || | | |  |  |  |||   ||  | ||||||                                                                                                    
TTGTCAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttacct-tctaaagatagtctgttatagtttctgcatggtttaactttatggattttggctctgttgacttttagcattgtgatggtcaatgaaaaattc----------------------------------------------------------------------------------------------------

upper sequence: Vv16s0013g00220.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT1G02170.1 (Arabidopsis thaliana), 5'ss of exon 2
TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgttttggtatttccaaacaacacttctttgtgaataccatgtgataagtggagagagtataaaaagaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag
||||  | |||||||| ||||| || ||||| ||| |||| || ||||| ||||||||||| || ||  | |||||||| ||||| || ||||||||||||| |      || ||   ||  |||  | |||||     ||    ||||  |   |          | | |   ||   | | ||||   || | |  ||  |  |                                                                                       
TTGTACGCCCTCTTCCACATGGTGTCAAGCTCCATTCAATTATCGATGCTTGCCATAGTGGTACCGTTCTGGATTTACCCTTCCTATGCAGAATGAACAGgtta------ttagtccctc--aac--cgcttct----aaaagggatgt--tgcttacctctctcgttatatttaacatacatccatttttttttttaattgaaacag-------------------------------------------------------------------------------------

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|110391005|gb|EC955956.1|EC955956
EST:     TGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAG                         GAGCGGACAGTATATATGGGAGGACCATCGCCCCCCATCAGGTATATGGAA
genomic: TGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgtt ... gtggccatagGAGCGGACAGTATATATGGGAGGACCATCGCCCCCCATCAGGCATATGGAA
EST: gi|161717099|gb|FC065911.1|FC065911
EST:     TGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAG                         GAGCGGACAGTATTTATGGGAGGACCATCGCCCCCCATCAGGTATATGGAA
genomic: TGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgtt ... gtggccatagGAGCGGACAGTATATATGGGAGGACCATCGCCCCCCATCAGGCATATGGAA