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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtctgcttagaacccatttttttttaccgcgcgtactggttggcacgcatcctgatcgaattctgcatctcatctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA

Basic information

species Zea mays
transcript GRMZM2G119265_T02
intron # 2
splice site 3'
intron type U2

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|211223642|gb|FL051772.1|FL051772
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCKACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225710|gb|FL051790.1|FL051790
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223637|gb|FL051767.1|FL051767
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTSSGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACSASCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225709|gb|FL051789.1|FL051789
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211221584|gb|FL051760.1|FL051760
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225698|gb|FL051778.1|FL051778
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGA-AACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211227757|gb|FL051793.1|FL051793
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225704|gb|FL051784.1|FL051784
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225703|gb|FL051783.1|FL051783
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225708|gb|FL051788.1|FL051788
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|149112056|gb|EE191226.2|EE191226
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211221585|gb|FL051761.1|FL051761
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223632|gb|FL051762.1|FL051762
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223639|gb|FL051769.1|FL051769
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225700|gb|FL051780.1|FL051780
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223644|gb|FL051774.1|FL051774
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211221583|gb|FL051759.1|FL051759
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211227756|gb|FL051792.1|FL051792
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225699|gb|FL051779.1|FL051779
EST:     CACGGACAGCGANAAGAGCATTCGTGTTTCCGGTTGCGTACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: CACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCG-ACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223646|gb|FL051776.1|FL051776
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCKACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAA
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAA
EST: gi|211225707|gb|FL051787.1|FL051787
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211225711|gb|FL051791.1|FL051791
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211221582|gb|FL051758.1|FL051758
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223645|gb|FL051775.1|FL051775
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
EST: gi|211223638|gb|FL051768.1|FL051768
EST:     GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGT                         AAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT
genomic: GCACGGACAGCGAGAAGAGCATTCGTGTTTCCGGTTGCGACAATGAGCGTgtaagtagtc ... atctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgcgcgtactggttggcacgcatcctgatcgaattctgcatctcatctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA
                       tcctgat  putative branch site (score: 3)
                                         tctcatct  putative PPT
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtagtctgcttagaacccatttttttttaccgcgcgtactggttggcacgcatcctgatcgaattctgcatctcatctgaccagAAACTCGGAGAGAACCACCCCAAGGATCTCCTGAACGAGGTGTCGAGAACTCATCAAGCAATCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA