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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcttggttttcaggaaaactgtgaataaaatagtataattgcaaatactggatggaatttttgtgctacaacttcatttatcattttatttctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG

Basic information

species Zea mays
transcript GRMZM2G030596_T01
intron # 17
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|60357772|gb|DN224745.1|DN224745
EST:     TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA                         ATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
EST: gi|31349834|gb|CD434191.1|CD434191
EST:     TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA                         ATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
EST: gi|211528377|gb|FL093833.1|FL093833
EST:     KTTAATNAATACAAAACTTTGACCCTGGAGAATGACAAGTTGSGAAATGA                         ATGCTTACAATACGAGGGATCA
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCA
EST: gi|78075869|gb|DV504303.1|DV504303
EST:     TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA                         ATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
EST: gi|6742642|gb|AW313457.1|AW313457
EST:     TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA                         ATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
EST: gi|78114930|gb|DV533318.1|DV533318
EST:     TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA                         ATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
EST: gi|211385800|gb|FL436087.1|FL436087
EST:     TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA                         ATGCTTHCAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
genomic: TTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGAgtaagtgcta ... tctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactggatggaatttttgtgctacaacttcatttatcattttatttctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG
                          cttcatttatcatttt  CT-rich tract
                        aacttcatttatcatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcttggttttcaggaaaactgtgaataaaatagtataattgcaaatactggatggaatttttgtgctacaacttcatttatcattttatttctttttcagATGCTTACAATACGAGGGATCAGAGAAACAACTTGTCCTGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG