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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGTTGGGGATCAAGGAGTGGTTGATTGGATCCATCCCCTCACGTGCTTCCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcctcgatctacctttctagcgagtttgggttgaatccctttggagtaaataaacgaaaggttcatactgccttattctctaatggattcatt...

Basic information

species Zea mays
transcript GRMZM2G179465_T03
intron # 3
splice site 5'
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|211448859|gb|FK989628.1|FK989628
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450981|gb|FK989645.1|FK989645
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450974|gb|FK989638.1|FK989638
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450977|gb|FK989641.1|FK989641
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450975|gb|FK989639.1|FK989639
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450976|gb|FK989640.1|FK989640
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211448861|gb|FK989630.1|FK989630
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450972|gb|FK989636.1|FK989636
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|9794578|gb|BE552886.1|BE552886
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATT
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATT
EST: gi|9028691|gb|BE238731.1|BE238731
EST:     CCCTCATCAAGCTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCA
EST: gi|87156349|gb|DY401138.1|DY401138
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450978|gb|FK989642.1|FK989642
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|26559035|gb|CA831270.1|CA831270
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211202951|gb|FL437985.1|FL437985
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|60398513|gb|DN231329.1|DN231329
EST:     TCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
genomic: TCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211448863|gb|FK989632.1|FK989632
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA
EST: gi|211450982|gb|FK989646.1|FK989646
EST:     CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAG                         ATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTAGATCTGAA
genomic: CCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcc ... tctctttaagATGGTTGCACGGAGGAATCCATCCATTATTGAAGAAGGTAGTGGATCTGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGTTGGGGATCAAGGAGTGGTTGATTGGATCCATCCCCTCACGTGCTTCCCTCATCAAGTTTCAAATCCCCATCTGCGCGAGGAACTCCTCTCTCAAGgtatctttcctcgatctacctttctagcgagtttgggttgaatccctttggagtaaataaacgaaaggttcatactgccttattctctaatggattcatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacgaaa