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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag

Basic information

species Zea mays
transcript GRMZM2G126453_T01
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 24
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcatt-cagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
|||| || |||||||||||||| || ||||| || ||||||||||| |||||||||||||| ||||| || |||||||| |||||||||||||| ||||||| |  | | |  | ||    ||||  |||  ||      || | || ||      |||| | ||     | |  || |  |||||  ||     | | |                                            
ATGGATTACGCACTAAAGATAAAGAACGTGTACTGGTTCTTGGTGCCACAAATAGGCCTTTCGACCTGGATGAGGCTGTCATTAGGAGGTTCCCGCGCAGgtgacagctataaccttgtgttggggttgggataa-----tgaaaaattgc-----tgtttgttgatttctaaccatttggtcgttaattactact-gtag-------------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA10G02400.1 (Glycine max), 5'ss of exon 23
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtggga--ctggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
||||  |||| || |||||||| |||||||| |||||||||| ||||||||| ||||||||||| || || |||||||| ||||||||| | || ||  ||| |   | |||   || | ||  |   || |||  |  ||| || |  ||   | |  |    ||   |||| |  |    || ||  ||||  ||||                                              
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcat-gttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatg---catggtc-tgacttcattttttttttgtag----------------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G17400.1 (Glycine max), 5'ss of exon 20
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
|||| ||| | || |||||||| |||||| | |||||||||| |||||||||||| |||||||| || || |||||||| ||||||||  | || || |||||||  | |||   ||   ||        ||| |   || |||  | ||  |||      | |  | ||| | ||    ||||    ||||   |  |||| | | |                                   
ATGGTTTGAGAACAAAAGATAAAGAGCGTATACTTGTTCTTGCTGCTACAAATAGACCTTTTGATCTTGATGAGGCTGTTATTAGGAGACTTCCACGAAGgtaaac-tcgttatgtttgatg--------ttaacttcttttatttc-gtgttttacaaatgagatctatgctaat----tcgtgttctttgttgaaaaatattgtag-----------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA02G17410.1 (Glycine max), 5'ss of exon 19
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtggga--ctggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
||||  |||| || |||||||| |||||||| |||||||||| ||||||||| ||||||||||| || || |||||||| ||||||||| | || ||  ||| |   | |||   || | ||  |   || |||  |  ||| || |  ||   | |  |    ||     |   | |  |||  ||  || | |                                                  
ATGGTCTGCGTACAAAAGATAAAGAGCGTGTACTTGTTCTTGCTGCTACAAACAGGCCTTTTGATCTTGATGAGGCTGTTATTAGGAGGCTTCCTCGACGgtgagcat-gttatgtttaatgttaacttgtattttcatgttttacagatgacatctattctaatgcatggtctgtcttcaatttttttttgtag--------------------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA10G02410.1 (Glycine max), 5'ss of exon 20
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
|||| ||||| || |||||||| |||||| | ||||||||||  ||||||||||| |||||||| || || |||||||| ||||||||  | || || |||||||  |  ||   ||   ||        | | |   || |||  | ||  ||       | |  | ||| | || |    |||  || | |  |  ||| ||                                       
ATGGTTTGCGAACAAAAGATAAAGAGCGTATACTTGTTCTTGCGGCTACAAATAGACCTTTTGATCTTGATGAGGCTGTTATTAGGAGACTTCCACGAAGgtaaac-tcattatgtttgatg--------tcagcttcttttatttc-gtgtttcacaaatgagatctatgctaatttg--tgttctttcttgaaaaaaattgtag-------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 5'ss of exon 23
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgt-tgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
| ||  |    ||| | || | ||| ||||| || || ||||  || |||||| ||||||||||||| || |||||||| |||||  |||| ||||| ||||||||  |   ||  |   | |||||    |      ||||  || ||   |     |   | ||   |||  || |  | || |    ||  | ||                                              
ACGGTCTTACGACTCAGGAAAGGGAACGTGTTCTGGTCCTTGCAGCCACAAATCGGCCTTTTGACCTTGATGAGGCTGTTATTAGACGGTTGCCCCGTAGgtaaattataaatcgcttccttggactaagcttttt--ttgttaaattgacatgacagtta-taggttgtgaaaattttgtggtattgacttctgcag----------------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 5'ss of exon 23
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
| ||  || | || || || ||||| ||||| || |||||||  || |||||||| ||||||||||| ||||||||||| ||||| ||||| || |  |||||| |  | | |   |   | |   |||| ||   || | |    ||||    |||    || |   |  | | | |  |  | |||| ||                                                   
ACGGTCTGAGGACAAATGAAAAGGAACGTGTTCTGGTTCTTGCAGCCACAAATAGACCTTTTGACCTTGACGAGGCTGTCATTAGAAGGTTGCCTCATAGgtaatttatatatagcttccttg--ttggacta---agcttt----ctgtcaaattgacatgtcg-taacaagtttttggtattggcttctgcag------------------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv07s0005g00200.t01 (Vitis vinifera), 5'ss of exon 23
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
||||  | || || || ||||| || |||||  | || ||||  || || ||||||||||||||||| || |||||||| ||||||||| | ||| | |||||||  |  | | ||| |      || ||||       ||||| | | |   |     | |     | | | |  |  |   |   | ||   |  ||| |                                         
ATGGCCTACGTACAAAGGATAAAGAACGTGTATTGGTACTTGCCGCCACCAATAGGCCTTTTGACCTTGATGAGGCTGTTATTAGGAGGCTACCCAGGAGgtaaacatcatatgatt-ataatcccttgatttgttg--tgtatgagtattagtcaacccagaaaaaccttaattccctactatgtatgttaactgccaacac----------------------------------------

upper sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 9
lower sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 24
ATGGGTTGCGCACTAAAGATAAGGAGCGTGTGCTTGTTCTTGGTGCTACAAATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttgtttcattcagtgggactggattacccagttgtataactgtagttttgttcggtgggccatgattatctaatcgttgcttttgggtagcaatagtttggttccatattcatcaccatcttactcattgtttcag
|||| |||||||| |||||||  ||  | || || || ||||  || |||||||| ||||||||||| || |||||||| ||||| ||||| || || ||||||    |   | |  || |  |  |||| || ||   | |||  |   |   |     ||       |  || | |||| |||  | ||    ||                                              
ATGGCTTGCGCACAAAAGATACCGAAAGGGTTCTGGTGCTTGCAGCCACAAATAGACCTTTTGACCTTGATGAGGCTGTTATTAGAAGGTTGCCGCGTAGgtaaggcatcactgagccattttg-ttggactatcctactttatttccacaaact-----gggacttagttcttctgtaatggttcatcttttacag----------------------------------------------

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|211384433|gb|FL031621.1|FL031621
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         -TTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|32921157|gb|CF025969.1|CF025969
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|58029637|gb|CX725064.1|CX725064
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAA-TTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|32920203|gb|CF025015.1|CF025015
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|211048841|gb|FL187601.1|FL187601
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|211048838|gb|FL187598.1|FL187598
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCA-                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|32921345|gb|CF026157.1|CF026157
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|211048837|gb|FL187597.1|FL187597
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
EST: gi|32920665|gb|CF025477.1|CF025477
EST:     AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAG                         GTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT
genomic: AATAGGCCTTTTGACCTCGACGAGGCTGTGATTAGGAGGTTCCCCCGCAGgtaaatgttg ... attgtttcagGTTAATGGTAAACTTGCCCGATGCATCAAATAGGGAGAAAATTCTAAAAGT