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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgcatttggtctgttggttgaaggattctctgcctacagctttgtttcaccgttttttgcgaactctgtagatggcatttttccttgactactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAACCTCCAGTAGCTCGTGCAGCAAAGCAGCCTGGGGTTCAGGAGCCCGCCGC

Basic information

species Zea mays
transcript GRMZM2G147614_T01
intron # 5
splice site 3'
intron type U12 (go to U12 genes for details)

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|17970001|gb|BM276769.1|BM276769
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|93013166|gb|EB638686.1|EB638686
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|89106294|gb|DY576511.1|DY576511
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211310177|gb|FL459368.1|FL459368
EST:     TAACCAAGTTGAGAAGCATYTTATCAGTATCATGCATGGAGTATCTGTCA                         MCCAGAACGCCAGTGCGACAGGAGGCGAATAAGGTGGTGATCGTAAGAMAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211037077|gb|FL277427.1|FL277427
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|17921703|gb|BM259354.1|BM259354
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|86474214|gb|DY240584.1|DY240584
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|74238971|gb|DT646885.1|DT646885
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|60345606|gb|DN212579.1|DN212579
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAG
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAG
EST: gi|22489535|gb|BU049458.1|BU049458
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|17921875|gb|BM259526.1|BM259526
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|16927590|gb|BM080659.1|BM080659
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAAAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|40334273|gb|CK368343.1|CK368343
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTNGATCGTA-GAAA
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGT-GATCGTAAGAAA
EST: gi|9254485|gb|BE344953.1|BE344953
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|33771015|gb|CF273309.1|CF273309
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACGGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|89106285|gb|DY576502.1|DY576502
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|21331342|gb|BQ486723.1|BQ486723
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211037078|gb|FL277428.1|FL277428
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAARAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211037076|gb|FL277426.1|FL277426
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|21331390|gb|BQ486771.1|BQ486771
EST:     TAGCCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|17921548|gb|BM259199.1|BM259199
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211240386|gb|FL373755.1|FL373755
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|74235859|gb|DT643773.1|DT643773
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211183920|gb|FL459369.1|FL459369
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAATAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|74235860|gb|DT643774.1|DT643774
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|17921704|gb|BM259355.1|BM259355
EST:     ATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAACC
genomic: ATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|211037079|gb|FL277429.1|FL277429
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|86472597|gb|DY238967.1|DY238967
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTTTCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
EST: gi|78544005|gb|DV621503.1|DV621503
EST:     TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCA                         ACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC
genomic: TAACCAAGTTGAGAAGCATCTTATCAGTATCATGCATGGAGTATCTGTCAgtatcctttt ... ctactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcaccgttttttgcgaactctgtagatggcatttttccttgactactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAACCTCCAGTAGCTCGTGCAGCAAAGCAGCCTGGGGTTCAGGAGCCCGCCGC
                                     ttccttgac  putative branch site 
         tttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgcatttggtctgttggttgaaggattctctgcctacagctttgtttcaccgttttttgcgaactctgtagatggcatttttccttgactactagtagACCAGAACGCCAGTGCGACAGGAGGCGAAGAAGGTGGTGATCGTAAGAAACCTCCAGTAGCTCGTGCAGCAAAGCAGCCTGGGGTTCAGGAGCCCGCCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG