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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattaatcacccccctagagtttatttggaacgcagttgttaatgctaactactcttttgcagttttttttgtgtgtggctgatagcagaaatgttaaaaattaattttgccttttgatttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAAGGCTTCAATGCTGGGTTCAGGCAATCTGTAAACGCTGGCTACAAGTGGG

Basic information

species Zea mays
transcript GRMZM5G833593_T05
intron # 3
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|71443400|gb|DR824450.1|DR824450
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|71327087|gb|DR800190.1|DR800190
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|211215261|gb|FL300696.1|FL300696
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGAGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|71448668|gb|DR829718.1|DR829718
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|76929776|gb|DV172157.1|DV172157
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|89253099|gb|DY624885.1|DY624885
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|76934920|gb|DV174088.1|DV174088
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|71771514|gb|DR969451.1|DR969451
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|91874026|gb|EB403983.1|EB403983
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAAC
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAAC
EST: gi|74234252|gb|DT642166.1|DT642166
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
EST: gi|71774208|gb|DR972086.1|DR972086
EST:     CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAG                         ATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA
genomic: CGTCTACCTTAGACAGAGAATGGATCCACAGGCAGAACCAGTTTCAAAAGgtattaatca ... tttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtggctgatagcagaaatgttaaaaattaattttgccttttgatttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAAGGCTTCAATGCTGGGTTCAGGCAATCTGTAAACGCTGGCTACAAGTGGG
                                             tttcatct  CT-rich tract
         atagcagaaatgttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattaatcacccccctagagtttatttggaacgcagttgttaatgctaactactcttttgcagttttttttgtgtgtggctgatagcagaaatgttaaaaattaattttgccttttgatttcatctagATGGGCTATCGGGACGGAATAACACAAGGGCAGAAGGACTCTGCCCAGGAAGGCTTCAATGCTGGGTTCAGGCAATCTGTAAACGCTGGCTACAAGTGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG