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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgaggggtggggatccacaaattaggtagctaaattgaagtcacccgcgctaagtcgcaaaagcagctatcaacctctctgaccgactctattcttgcttcccctctccccttctgtatcttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCCACCCTGGCCTCAAGCGTGGGCGCATGTCTCCCCATGAAGAGCGACTCAT

Basic information

species Zea mays
transcript GRMZM2G130149_T02
intron # 1
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|50337394|gb|CO532520.1|CO532520
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211292497|gb|FL395082.1|FL395082
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|9953044|gb|BE639627.1|BE639627
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211053893|gb|FL382501.1|FL382501
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211169952|gb|FL426181.1|FL426181
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211158151|gb|FL393698.1|FL393698
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211395354|gb|FL395720.1|FL395720
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211204239|gb|FL383408.1|FL383408
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTVAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|13558921|gb|BG550276.1|BG550276
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211532905|gb|FL379303.1|FL379303
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211182199|gb|FL384678.1|FL384678
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211146081|gb|FL408662.1|FL408662
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211154986|gb|FL395403.1|FL395403
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|37416590|gb|CF645947.1|CF645947
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211279383|gb|FL428429.1|FL428429
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211400665|gb|FL399233.1|FL399233
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGC
EST: gi|71419155|gb|DR804670.1|DR804670
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|71317839|gb|DR795686.1|DR795686
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211487871|gb|FL397199.1|FL397199
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|29576784|gb|CB616896.1|CB616896
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGTCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|211022142|gb|FL152571.1|FL152571
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|101401056|gb|EB822207.1|EB822207
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
EST: gi|76911849|gb|DV164464.1|DV164464
EST:     TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAG                         GGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC
genomic: TGTCCGTCTGTTCGGTGAACGTCGTTGGGATTTCATTGCCAAAGTATCAGgtttgagggg ... cttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctctgaccgactctattcttgcttcccctctccccttctgtatcttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCCACCCTGGCCTCAAGCGTGGGCGCATGTCTCCCCATGAAGAGCGACTCAT
  ctctgac  putative branch site (score: 3)
            ctctattcttgcttcc  putative PPT
               tattctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgaggggtggggatccacaaattaggtagctaaattgaagtcacccgcgctaagtcgcaaaagcagctatcaacctctctgaccgactctattcttgcttcccctctccccttctgtatcttcatgcagGGCTCAACCGGACAGGCAAGAGCTGCCGGCTGCGCTGGGTCAACTACCTCCACCCTGGCCTCAAGCGTGGGCGCATGTCTCCCCATGAAGAGCGACTCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA