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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTAAGCCAGAGGTTCGAGAGACGAACATATGCCAACCCATTTGAGGTTTATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagcataaagtacaccctatttgaacattggtatgtgcactgatttgcctcagattttataatcaacacctttgactgtctatttag

Basic information

species Zea mays
transcript GRMZM2G161337_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G161337_T02 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g15780.1 (Oryza sativa), 5'ss of exon 5
TTTAAGCCAGAGGTTCGAGAGACGAACATATGCCAACCCATTTGAGGTTTATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagcataaagtacaccctatttgaacattggtatgtgcact---gatttgcctcagattttataatcaacacctttgactgtctatttag----------------
||||||||||||||| ||||| |||||||| ||||| |||||||| || |||||||| ||||| |||||||| || || ||||||||||| ||||||||||||||    ||  | |  |    |||||  ||  |||||| ||        |||||  | ||||  ||  |    | | | ||  |    || ||                 
TTTAAGCCAGAGGTTTGAGAGGCGAACATACGCCAATCCATTTGAAGTCTATCGAGCTTTACGAATTGTGAACCCAAGTCCATACATGGCATATGTACAGgtatatttacactatgcgc---ttattttgac--tggtatctgtttctaacatttgtataagataatactaaacgctcttatgtataataatatactattatgatctcttag

upper sequence: GRMZM2G161337_T02 (Zea mays), 5'ss of exon 5
lower sequence: PP1S154_79V6.1 (Physcomitrella patens), 5'ss of exon 7
TTTAAGCCAGAGGTTCGAGAGACGAACATATGCCAACCCATTTGAGGTTTATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagcataaagtacaccctatttgaacattggtatgtgcactgatt-tgcctcagatt-ttataatcaacacc--tttgactgtctatttag------
  | ||||||||||| ||||||||||||| |||  |||| |||||||||||  | ||  | || || || |||||||| |||||||||   ||  | ||||| |   | | |    |  ||  | ||  ||||| |    | | | | | | |     |||||  | ||   ||   |  | ||| |     | | |      
CCTCAGCCAGAGGTTTGAGAGACGAACATTTGCAGACCCTTTTGAGGTTTACAGGGCTCTGCGTATCGTAAATCCTAGTCCATACATGATCTACCTTCAGgtgtgtcaccttcctctgaacgttcttgaaacatag---cgcgaattaagtgtagtaaagattactgtagaaaatgtcgatatgattacagctgttgcagttg
















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|6021162|gb|AW066090.1|AW066090
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|60401378|gb|DN234185.1|DN234185
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|31364516|gb|CD448871.1|CD448871
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|5901211|gb|AW042311.1|AW042311
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|60400588|gb|DN233395.1|DN233395
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|116816802|gb|EC859574.1|EC859574
EST:     CGAGCATTACGGATTGTGAATCCATA-CCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: CGAGCATTACGGATTGTGAATCC-TAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|71448131|gb|DR829181.1|DR829181
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|5915491|gb|AW053132.1|AW053132
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|211345789|gb|FL266262.1|FL266262
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|67024314|gb|CO453063.1|CO453063
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
EST: gi|211282582|gb|FL175928.1|FL175928
EST:     ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAG                         GCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC
genomic: ATCGAGCATTACGGATTGTGAATCCTAGCCCATACATGGCGTATGTACAGgtatagaagc ... gtctatttagGCAAGAGGCTGTGTATTGGTTGCGTCTAGTCCTGAAATTCTTACACGAGTC