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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat...

Basic information

species Vitis vinifera
transcript Vv08s0040g00430.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagg-gtttcttgaatgtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat-
||||||| | |||||||| |||||||| || |||||||||||||| ||||| |||||||| |||||||| ||||| || ||||| ||||||||| | ||||| ||   | |  | | | ||| |   | |  | |||| |  || |    || |     ||    || ||     ||| | |  |||| ||     |  |  
AGATGGTTCTGATGATCAGAAGAAAGGCACACAACTTTTGGAAGTCTATGCTATTGAGATCCAAATGTACACTGAAACAAAGAACAACAAAAAATTGAAGgtaagacatattgtcagtctttttacacgtgattattt-tggattacaggttactactgttcaagattttgtgtcagtttctt-gttcaatattgcagtact

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G079196_T01 (Zea mays), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgattt---gtaaatcatttttttcagtaattttgtatattt--ctatagtatttaagttccatgagttaaaat
||||||| | ||||||||||||||||| || |||||||||||||| ||||| ||||| || |||||||| ||||| || |||||||| ||||| || ||||| ||   | ||||  ||  | ||  ||  |   | |   ||   | || |       ||| ||   ||  |    |||  |   | | |||  |   ||     
AGATGGTTCTGATGATCAAAAGAAAGGCACACAACTTTTGGAAGTCTATGCTATTGAAATACAAATGTACACTGAAACAAAGAATAATAAAAAGCTTAAGgtaagacatccttgtttgcctattcgcaagtgactctttggtgggtaatatcccaagttaaattatcattgtgaattatgatgcattatttctttttttt-----

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G132804_T01 (Zea mays), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgatttgtaa-----atcatttttttcagtaatt-ttgtatatttctatagtatttaagttccatgagttaaaat
||||||| | ||||||||||||||||| || || ||||||||||| ||||| ||||| || |||||||| ||||| || |||||||| ||||| || |||||  ||  | ||||  ||    ||| ||  |   | | |       || || || || | | ||  ||||  |||   ||  | | |   |   |  | |      
AGATGGTTCTGATGATCAAAAGAAAGGCACACAGCTTTTGGAAGTCTATGCTATTGAAATCCAAATGTACACTGAAACAAAGAATAATAAAAAGCTTAAGgtatggcgtccttgtttgcccatttgcaagtgactctttggtgggtattatcttattaaattatccttgtgaattgtgatgatgtatgtttctgaaaaat------

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA19G17660.3 (Glycine max), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaat-gtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat-
|||||| |||||||| || ||||||||||||||||||||||| ||||||||  | |||||||||||||| |||||||||||||| ||||||||||| ||||||||| ||| ||  || |      | | | ||  |   | | | |  |  || ||||||| ||| |  ||  | | | ||| | |    |    |  ||| 
AGATGGCACAGATGACCATAAGAAAGGAACCCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACTGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttgttttatagaagaaattcttgttcttgcatgacttaagtagttaagtaattatgtct--tttcaaattcttttattgtgtttgcctgcaatt

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA19G30100.1 (Glycine max), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttctt---gaatgtttgtttccatattg--atttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat
|||||||||||||||||| ||||||||||||||||||||||| || |||||||| || ||||||||||| || ||||  ||||| ||||||||||||||||||||  ||| ||   |||  |   ||   ||  ||  | ||| | |  | |  |    ||   |||  |  ||  ||  || |||   | | |  | || |   
AGATGGTACAGATGATCACAAGAAAGGAACCCAACTTTTGGAGGTTTATGCAATAGAAATTCAAATGTACACAGAGATGAAGAACAACAAAAAACTCAAGgtcagcatttgttttagaaaataaattcttattatgcaacttgcataggagtaataat-gtgcctttccaatttattactgtcttt---tcctacaattttagc-

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G14170.1 (Glycine max), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaat-gtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat
|||||| |||||||| || || |||||||| ||||||||||| ||||||||  | |||||||||||||| || ||||||||||| ||||||||||| ||||||||| ||||||  |  |        | | ||  |   | | | |  |  ||  ||  |||    |  || ||  || |||   | | ||   | |    
AGATGGCACAGATGACCACAAAAAAGGAACTCAACTTTTGGAGGTATATGCTGTAGAGATTCAAATGTACACAGAGACCAAGAACAACAAAAAACTTAAGgtcaggatttcttttacagaagaaactcttgttcttgcatgacttaagtaattatgtcttttcaattgcttttagtgtgtttgcctgcaatttatcattg-

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA03G00670.1 (Glycine max), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtt--tcttgaatgtttgtttccatattg--atttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat
||||||||||||||| || |||||||||||||||||||| || || |||||||| || || |||||||| || ||||| || || ||||||||||||||||||||  ||  | ||  |  |   ||   ||  ||  | ||| | |  | |  |        |||   |||| | ||  |  |||   ||  |  | |||   |
AGATGGTACAGATGACCATAAGAAAGGAACCCAACTTTTAGAGGTTTATGCAATAGAAATCCAAATGTACACAGAGACAAAAAACAACAAAAAACTCAAGgtcagcattgatttttgaaataaattcttattatgcaacttgcataagactaataatgagcctttccaatatat-tactgctttt---ttgtacaatttagctt

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S124_47V6.1 (Physcomitrella patens), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgatttgtaaatcatttttttcag-taattttgtatatttctatagtatttaagttccatgagttaaaat---
||||||||||||||| || ||||| || || ||| |  |||| || ||||| || |||||||| |||||||| ||||||||||| ||||| || |||||||| |    ||       | |   |   ||| |   | | |      ||     |   |||||  ||| ||  | |||   |     |  |    || ||     
AGATGGTACAGATGACCAGAAGAAGGGCACACAATTGCTGGAGGTGTATGCGATAGAGATTCAGATGTATACAGAGACCAAGAACAACAAGAAGCTCAAGgtta----tttcaactggctccctgttatagtctatcgcattctgcttagacgaaacaatttattatgttcttttagctctcccactataaatctttaatcatt

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S105_216V6.1 (Physcomitrella patens), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagt-tccatgagttaaaat------------------------------------------------------------------------------------------
|||||| |||||||| || ||||| || || || ||  ||||||| ||||| ||||| ||||| |||||||| ||||| ||||| ||||||||||| ||||| ||      |  ||  ||   ||  |  |   |     || |  |  |  |||  || | ||  |   ||| |  | |||| | | |||   | | | |                                                                                          
AGATGGCACAGATGACCAGAAGAAGGGCACGCAGCTGCTGGAAGTTTATGCGATTGAAATTCAGATGTATACAGAGACTAAGAACAACAAAAAACTTAAGgttagttcaagtgaaaccttcaattgaaattctgtgacctaagctctgctaccag--atctagtggaa--ctaaaaaaattaattattcattcttgacattgtagcaataggatctcgaagtcgttagtgttggaatctcgtatattggtataagagttagtatttattctttttagcgtgaaccttgcag

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: PP1S90_192V6.1 (Physcomitrella patens), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgt---------cagggtttcttgaatgtttgtttccatattgatttg-taaatcatttttttcagtaattttgt-atatttctatagtattt----aagttccat-----gagttaaaat----------------------------------------------------------------------------
|||||||||||||||||| ||||| || || ||| |  | || || ||||| || |||||||| |||||||| ||||||||||| ||||| || ||||||||         |||  |  |  |     |        | |||||||| | || || ||| |    |  ||  |   | ||   |||| || |    |   | |||     | || |||||                                                                            
AGATGGTACAGATGATCAGAAGAAGGGCACACAATTGCTCGAGGTTTATGCGATAGAGATTCAGATGTATACAGAGACCAAGAACAACAAGAAGCTCAAGgttttttcaaccagattcccacgtgcagtctaccttgttttgatttgatgaaacaatttatattctgtttaagccgtgttatcataggatctctcaacccttcattttcggtgtcaaaatttatagttgtgggtaagtggttaatatgtttactttttagggtttgtgctgattctctctggtataaactttgcag

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ29478 (Selaginella moellendorffii), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat
||||||  | |||||||| ||||||||||| || ||| |||||||||| || ||||||||||| ||||| || ||||| ||||| ||||| || || |||||          |      || |||  ||  |  ||||   | | |     ||||                                             
AGATGGCTCTGATGATCAGAAGAAAGGAACTCAGCTTCTGGAAGTATACGCCATTGAGATTCAGATGTACACGGAGACAAAGAACAACAAGAAGCTAAAGgta-------tctatgcagttctttttatgatattttgctgaacctcggcctcag---------------------------------------------

upper sequence: Vv08s0040g00430.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ28052 (Selaginella moellendorffii), 5'ss of exon 6
AGATGGTACAGATGATCAAAAGAAAGGAACCCAACTTTTGGAAGTATATGCAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggtttcttgaatgtttgtttccatattgatttgtaaatcatttttttcagtaattttgtatatttctatagtatttaagttccatgagttaaaat
||||||  | |||||||| ||||||||||| || ||| |||||||||| || ||||||||||| ||||| || ||||| ||||| ||||| || || |||||     | | |  | | ||| ||   ||||   | |    | | |     ||||                                             
AGATGGCTCTGATGATCAGAAGAAAGGAACTCAGCTTCTGGAAGTATACGCCATTGAGATTCAGATGTACACGGAGACAAAGAACAACAAGAAGCTAAAGgt----atctatgcagttttttttatgatat---tctactgaacctcggcctcag---------------------------------------------

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|33405408|gb|CF211035.1|CF211035
EST:     AACAAAAAACTCAAG                         CAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
genomic: AACAAAAAACTCAAGgtcagggttt ... ttaactgcagCAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
EST: gi|110703379|gb|EE080173.1|EE080173
EST:     CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAG                         CAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
genomic: CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggttt ... ttaactgcagCAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
EST: gi|33402297|gb|CF207924.1|CF207924
EST:     CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAA                         CAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
genomic: CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggttt ... ttaactgcagCAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
EST: gi|110724456|gb|EE100301.1|EE100301
EST:     CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAG                         CAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
genomic: CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggttt ... ttaactgcagCAACTATACCAGAAAGCACTTACAATCAAATCAGCCATACCCCATCCAAGA
EST: gi|161718082|gb|FC068585.1|FC068585
EST:     CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAG                         CAACTATACCAGAAA
genomic: CAATTGAGATTCAAATGTATACTGAGACCAAGAATAACAAAAAACTCAAGgtcagggttt ... ttaactgcagCAACTATACCAGAAA