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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGACGACTTCTTTGATTCCCTCTCTAGTGGAACGTTTGGACGTGGAGGGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggaccaaaaccacctttcttctcgagttttccactgttgctgctttgctcattgttattggtgtgcag

Basic information

species Zea mays
transcript GRMZM2G132796_T01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G132796_T01 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os01g02090.1 (Oryza sativa), 5'ss of exon 7
CAAGGACGACTTCTTTGATTCCCTCTCTAGTGGAACGTTTGGACGTGGAGGGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggaccaaaaccacctttcttctcgagttttccactgttgctgctttgctcattgttattggtgtgcag
|||||| ||||| |||||||||||| |||||||||| |||||||||||||||| ||| || |||  ||||  ||| |||| ||||| | |||| ||||||||||  |  |     |||||   |||| || | ||  ||  |  ||| |||||| |||||| ||  |||||||
CAAGGATGACTTTTTTGATTCCCTCACTAGTGGAACATTTGGACGTGGAGGGCAAAACGGGAGGTCAAGATTTTCCGAACAGCGCAAACTAGATACAGAGgtacaaggtc-----cacctgctttcttga-tgttgtaccatcactgttttgctgattgttgttt-tgtgcag
















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|211472047|gb|FL082862.1|FL082862
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|21389979|gb|BQ528028.1|BQ528028
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGTGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|67022988|gb|CO451737.1|CO451737
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGTGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472052|gb|FL082867.1|FL082867
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472054|gb|FL082869.1|FL082869
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211041778|gb|FL481009.1|FL481009
EST:     GCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|148954039|gb|EC899436.2|EC899436
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211469523|gb|FL082856.1|FL082856
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|24773703|gb|CA408957.1|CA408957
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGTGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472043|gb|FL082858.1|FL082858
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|30032201|gb|CB834052.1|CB834052
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|21331886|gb|BQ487267.1|BQ487267
EST:     TGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGTGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: TGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472050|gb|FL082865.1|FL082865
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472048|gb|FL082863.1|FL082863
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472056|gb|FL082871.1|FL082871
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472045|gb|FL082860.1|FL082860
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGTGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|78114073|gb|DV532462.1|DV532462
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472055|gb|FL082870.1|FL082870
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472049|gb|FL082864.1|FL082864
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|7217014|gb|AW563136.1|AW563136
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGTGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|86474105|gb|DY240475.1|DY240475
EST:     CAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: CAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472053|gb|FL082868.1|FL082868
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472042|gb|FL082857.1|FL082857
EST:     GCCAAAYGGAAGGGGAAGACCTNCCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GCCAAATGGAAGGGGAAGACCT-TCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211469521|gb|FL082854.1|FL082854
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211469522|gb|FL082855.1|FL082855
EST:     GCCAAATGGAAGGGGAAGACCTTCCTGAACGGCGCASAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GCCAAATGGAAGGGGAAGACCTTC-TGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472046|gb|FL082861.1|FL082861
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|78089842|gb|DV518216.1|DV518216
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472044|gb|FL082859.1|FL082859
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211472051|gb|FL082866.1|FL082866
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|148948574|gb|EC894100.2|EC894100
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
EST: gi|211469520|gb|FL082853.1|FL082853
EST:     GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAG                         ACGTTTNGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA
genomic: GGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggacc ... tggtgtgcagACGTTTGGCGAATTTCCGAGGCACAGGCAGCCCTACCGTGGTGGCGGCCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGGACGACTTCTTTGATTCCCTCTCTAGTGGAACGTTTGGACGTGGAGGGCCAAATGGAAGGGGAAGACCTTCTGAACGGCGCAGAGTAGACACAGAGgtactggaccaaaaccacctttcttctcgagttttccactgttgctgctttgctcattgttattggtgtgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA