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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGATGGGAAAAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccccttggtgtttactggttactattacattcttgatttgccaatacccttgttcgcaccctggtgtagatcatttgagctaattataagcct...

Basic information

species Zea mays
transcript GRMZM2G054634_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G054634_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 5
GATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGATGGGAAAAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccccttggtgtttactggttactattacattcttg---atttgccaatacccttgttcgcaccctggtgtagatcatttgagctaattataagcct--------------------------------------------------------------------------
||||| ||  |||||||||||||| |||||||||||||||| ||||||||||||||||||||||| ||||||||||| || || ||||||||||||||||||| ||     ||      |  |  ||| ||   || || ||   |  |  |  ||    ||||  |   |     |  | ||| | | || |||  |||| |                                                                          
GATCCTCGGCTGTCAAGTTTTGGACTAATGAAGAACAGCCGCGATGGGAAAAGTTATAGCACTAATCTGGCTTACACCCCGCCTGAGTTTCTACGAACTGgtaggaa----tttacacatgatccttattaccgcactcatgggcaccttactctattgatgttttccagcaaaaatgaaacatgtcaacttatttcaagcttgctatatatttactcccaagtactaacattgtttgactgcaccgaacaatttgtgcatgacacttgtatgacag

upper sequence: GRMZM2G054634_T02 (Zea mays), 5'ss of exon 5
lower sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 4
GATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGATGGGAAAAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagaccccct-tggtgtttactggttactattacattcttgatttgccaatacccttgttcgcaccctggtgtagatcatttgagctaattataagcct
||||| ||  | || | ||||||  | |||||||||||  | ||||| ||||| |||||||| ||| | ||||| |||||||| |||||| |||| || ||||| |  |    |  |||  |  |    | |  |||  |   |||    | |     |    |  | ||||| |   || ||||                
GATCCTCGTCTATCTACTTTTGGTCTTATGAAGAACAGTAGAGATGGCAAAAGCTATAGCACAAACTTAGCTTATACTCCACCTGAGTTTTTACGGACAGgtaaaattcttgatcttgtgaatcgtagtcgaagacaaacc-aattcattattgaagattaaagttctctggtttt--tcttttgcag-------------

upper sequence: GRMZM2G054634_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S156_133V6.1 (Physcomitrella patens), 5'ss of exon 5
GATCCCCGCTTGTCAAGTTTTGGATTAATGAAGAACAGCCGTGATGGGAAAAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgta------agacccccttggtgtttactggttactattacattcttgat-ttgccaataccc------ttgttcgcaccctggtgtagatcatttgagctaattataagcct----------------------------
|| || ||  | ||  |||||||  | |||||||||||| | ||||||||||| || ||||| || |||||||||||||| || ||||   || |||| ||||       |   ||||   | |  |  |  || |    ||  || ||  ||  ||||  |       ||    | |  |  |  ||    ||    |||  |  |  |                               
GACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGGAAAAGCTACAGCACCAATCTGGCTTACACTCCTCCTGAGTACTTAAGAACAGgtatcccacggtttccctctttctggatcgaatatttgagcaacctggaaattagcaatttctattatgttaaatgtatgcatgcataatgtatgcatgcttctctttggtacgtgacaaatgtcataagagggtttgcag

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|89248037|gb|DY619823.1|DY619823
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
EST: gi|211485328|gb|FL295172.1|FL295172
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
EST: gi|71760095|gb|DR958032.1|DR958032
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
EST: gi|211485330|gb|FL295174.1|FL295174
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
EST: gi|211485329|gb|FL295173.1|FL295173
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
EST: gi|78122641|gb|DV541025.1|DV541025
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGAGAAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTT
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGT-AA-TTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTT
EST: gi|32930139|gb|CF034951.1|CF034951
EST:     AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTG                         GCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG
genomic: AAGTTATAGCACTAACCTGGCTTACACTCCACCAGAGTTTCTACGAACTGgtaagacccc ... tgcattacagGCAGAGTAATTCCGGAGAGTGTGATCTATAGCTATGGAACTGTCCTGTTGG