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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttccttccccaggagttctcagacaaccctcttatgcacatctatctgtgttcttttaaccccctttggagatcaaatgttactgtttttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAATCCCATTGATTGTGTGCACCTTGAACGGAACTGCTTCAATTATTGCATT

Basic information

species Zea mays
transcript GRMZM2G066578_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G066578_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g33250.2 (Oryza sativa), 3'ss of exon 3
-----atttccttccccaggagt-tctcagacaaccctcttatgcacatctatctgtgttcttttaaccccctttggagatcaaatgttactgtttttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAATCCCATTGATTGTGTGCACCTTGAACGGAACTGCTTCAATTATTGCATT
     |   |      | | ||| | |   |     |    |   |||| || ||   | | | ||    | ||     | | |   || ||    || | |||||||||||||||||| |||||||||||||| || || ||| |  | ||||| |||||| |||| |  ||  ||||||  ||||||||||| || ||||||||
aagagaaccctgcagactgcagtatttgtaattgagcaagcagatacatatacctaaatgcatatatgttcatt-----acctacaattcctaacgttgt-tgcagCCGTCATCCATCCGTTTGCTGAGCTCGTTGCCTACGAATTGCTCTTCTCGATCCCACTGATCGCCTGTGCCTTGACTGGAACTGCTTCCATAATTGCATT
















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|148930973|gb|EC873493.2|EC873493
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|76928666|gb|DV171728.1|DV171728
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|149101383|gb|EE187500.2|EE187500
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|89757801|gb|DY687247.1|DY687247
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|78076046|gb|DV504480.1|DV504480
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|78091933|gb|DV520307.1|DV520307
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|148956804|gb|EC902698.2|EC902698
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|211418299|gb|FL156338.1|FL156338
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|211418301|gb|FL156340.1|FL156340
EST:     CGCTACCACTCCCACCCAC-ACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CGCTACCACTCCCACC-ACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|76018388|gb|DT945558.1|DT945558
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|148999701|gb|EE036698.2|EE036698
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
EST: gi|93015094|gb|EB640614.1|EB640614
EST:     CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCT                         CCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA
genomic: CCGCTACCACTCCCACCACCACGCCTCCATCGTCACCGAGCCAATCACCTgtaagcagaa ... ttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgtgttcttttaaccccctttggagatcaaatgttactgtttttttgtgcagCCGTCATCCATCCATTTGCTGAGCTCGTGGCGTATGAACTATTGTTCTCAATCCCATTGATTGTGTGCACCTTGAACGGAACTGCTTCAATTATTGCATT
          ttttaac  putative branch site (score: 2)
                                       ctgttttttt  putative PPT
       ttcttttaa  TA-rich tract