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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaacaattttgggcaaccaaacttcctgtttaccattttaatttgagtcgtatgattatctgtatctgtttcaaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCAGCAGAAGCCACGTGCAACATGCTGAAACGGAAG

Basic information

species Zea mays
transcript GRMZM2G096389_T05
intron # 15
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|76018787|gb|DT945957.1|DT945957
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|211368014|gb|FL470445.1|FL470445
EST:     TGGCAGCTGAATTGGTAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|211370660|gb|FL470448.1|FL470448
EST:     GATCCAGAAGCGGGAAAG-AA                         AAACGGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACC
genomic: GATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAAC-GAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACC
EST: gi|211368015|gb|FL470446.1|FL470446
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|29544081|gb|CB604461.1|CB604461
EST:     CAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCCCGAAGAGCTCGACACCTGCTGAAACACCA
genomic: CAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|76018788|gb|DT945958.1|DT945958
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|78120367|gb|DV538751.1|DV538751
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|60396686|gb|DN229553.1|DN229553
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|211370659|gb|FL470447.1|FL470447
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
EST: gi|211309718|gb|FK967596.1|FK967596
EST:     TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAA                         AAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA
genomic: TGGCAGCTGAATTGGCAGCTAGAGGGATTGATCCAGAAGCGGGAAAGAAAgtaaggaaca ... caaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttaccattttaatttgagtcgtatgattatctgtatctgtttcaaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCAGCAGAAGCCACGTGCAACATGCTGAAACGGAAG
         ttttaat  putative branch site (score: 3)
                                      tctgtttc  putative PPT
        attttaatttgagt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggaacaattttgggcaaccaaacttcctgtttaccattttaatttgagtcgtatgattatctgtatctgtttcaaaacatagAAACGAAAACGTAATGAAGGCACGAAGAGCTCGACACCTGCTGAAACACCAGCAGAAGCCACGTGCAACATGCTGAAACGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG