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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttctttgtttttgtgagcaggatctactcaacatccacgctaagatttgtgccccactgtaaaactttagtaactgatgaatgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG

Basic information

species Zea mays
transcript GRMZM2G017089_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g21990.1 (Oryza sativa), 3'ss of exon 9
gtaagtttttctttgtttttgtgagcaggatctactcaacatcca--cgctaagatttgtgccccactgtaa-----aactttagtaactgatgaatgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
||| ||||||||| |  || || |  |||||||    | || ||   | ||   | ||||    | || |||     || || | | |||||| |||    ||  ||||    |||| |||||||| |||||||| ||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
gtacgtttttcttggcattggttattaggatctgtatagcagccttccactgctacttgttttactctataagttataagttcatttactgataaattcaatgtgcattg---tagGGCTTGCTGTGAGCCAACGGCACACATATTTATTTTCTGCTGGTGATGACAAACAAGTAAAGTGTTGGGATCTTGAACAAAACAAG

upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G04910.1 (Glycine max), 3'ss of exon 8
gtaagtttttctttgtttttgtgagcaggatctactcaacatccacgctaagatttgtgccccactgtaaaactttagtaa-ctgatgaatgttctgcacattacta-tagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
                                      |   ||| | ||  ||| |||       | ||   |  || |   | || |      || || ||  ||  ||| |||||||| ||| |  | || |||||  | || ||||||||||| || |||||||| |||||||||||||||||||| || |||
---------------------------------gtatgatg-ccaaggtattattggtggtg-gtagcaattgtgaagcaggttaataataacaatgtacttttttaacagGTCTTGCTGTTAGCAACAGACATACTTACATGTTCTCTGCTGGTGACGATAAACAAGTTAAATGTTGGGATCTTGAACAGAATAAG

upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA15G15960.2 (Glycine max), 3'ss of exon 7
gtaagtttttctttgtttttgtgagcaggatctactcaacatccacgctaagatttgtgccccactgtaaaactttagtaactgatgaatgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
                        | | |||      ||  |      ||    | ||  |  | ||| || |    || | | || ||   | |||   ||   | ||| |||||||| ||| |  | || |||||  | || |||||||||||||| |||||||| ||||||||||| |||||||| || |||
------------------------gtaagatgc---taaggtgt-tattagtggtggtagca-attgtgaacc--aggttaataat-aacaatgtgc-ttttttaacagGTCTTGCTGTTAGCAACAGACATACTTACATGTTCTCTGCTGGTGATGATAAACAAGTTAAATGTTGGGACCTTGAACAGAATAAG

upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT3G16650.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtttttctttgtttttgtgagcaggatct--actcaacatccacgctaagatttgtgccccactgtaaaactttagtaactgatgaatgttctgca--cattact--atagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
|| ||  |    || ||||      ||   | |    | | ||    | ||   |     |  ||| ||||||| |||   ||||    ||  || |  |   |||  |  | ||| || ||||| ||| |  | || || ||| | |||||||||||||||||||| ||||| ||||| ||||| ||||| || || |||
gttagactactatttttttccccctcaatttgttagtttatcaatagctcttgtagaaaagtaccagtgtaaaagttt--caactctctaagtttatataattattgtttcacagGCCTCGCTGTAAGCAATAGACATACCTATATGTTTTCTGCTGGTGATGACAAGCAAGTCAAATGCTGGGACCTTGAGCAGAATAAG

upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: AT4G15900.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtttttc---tttgtttttgtg-agcaggatctactcaacatccacgc---taagatttgtgccccactgtaaaactttagtaactgatgaatgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
|| ||  ||||   | |||| | ||  |  |  || |  |  || |         ||| | |   |   ||   || || ||| |   ||  |    ||| || |  ||  || ||| || ||||| ||| | || || || ||| | || ||||||||||||||||| ||||| ||||| ||||| ||||| || || |||
gttagcctttcaaatctgttctcgtttattaatatttgttagacttttcaataaataacactctcgggacaagttacaagtttgggctctttt----gttttgaattttgttacagGCCTCGCTGTAAGCAATCGACATACCTATATGTTCTCTGCTGGTGATGACAAGCAAGTCAAATGCTGGGACCTTGAGCAGAATAAG

upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv05s0077g02310.t01 (Vitis vinifera), 3'ss of exon 8
gtaagtttttctttgtttttgtgagcaggatctactcaacatccacgctaagatttgtgccccactgtaaaactttagtaactgatga-atgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
                                   | |   |    |  |  |||| |      || ||    | |  |  || || | ||    ||   | |  |  ||| |||||||| ||| |    || || ||| | || || |||||||||||||||||||| ||||| ||||| |||||||| || |||
----------------------------------gttagt-ttattgtcataatttctattg-gctttat--ttctgctggctaatcatatacagtgtttact-ttgcagGCCTTGCTGTTAGCAACAAACATACATATATGTTCTCAGCTGGTGATGACAAACAAGTTAAATGCTGGGACCTTGAACAGAATAAG

upper sequence: GRMZM2G017089_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S402_49V6.1 (Physcomitrella patens), 3'ss of exon 7
gtaagtttttctttgtttttgtgagcaggatctactcaacatccacgctaagatttgtgccccactgtaaaactttagtaactgatgaatgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
           ||||||  || |    ||    |  | |  |  || || || ||| |       ||  | |  ||   | |  |||||||      |     |   ||| ||||| || |||   || ||  |||||||||| || ||||||||||||||||| || |||||||||||||||||| | || |||
----------gtttgttactgagt-ttggccaaatcccatttttacacttag-tttctattgatgtggcacatgttgacagcaaatgaatggatgtgat----cggcagGCCTTGCAGTGAGCGCCCGGCATCCTTATTTATTCTCAGCTGGTGATGACAAACAGGTCAAATGTTGGGATCTTGAATACAATAAG

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|78085590|gb|DV513983.1|DV513983
EST:     ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTG                         GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACA
genomic: ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTGgtaagttttt ... attactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACA
EST: gi|6021220|gb|AW066148.1|AW066148
EST:     ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTG                         GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACA
genomic: ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTGgtaagttttt ... attactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACA
EST: gi|32933221|gb|CF038033.1|CF038033
EST:     ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTG                         GACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACA
genomic: ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTGgtaagttttt ... attactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACA
EST: gi|148962621|gb|EE013511.2|EE013511
EST:     ATCAGGAACCCTGAAGCTTACACTGACTGGCCATATTGAGCAAATTCGTG                         GACTTGCTGTCAGCCAACGTCACACTTATTTATT
genomic: ATCAGGAACCCTGAAGCTTACACTGACTGGTCATATTGAGCAAATTCGTGgtaagttttt ... attactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgccccactgtaaaactttagtaactgatgaatgttctgcacattactatagGACTTGCTGTCAGCCAACGTCACACTTATTTATTTTCTGCTGGTGATGACAAACAAGTAAAATGTTGGGATCTTGAACAAAACAAG
             taaaactttagtaa  TA-rich tract