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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAAACCCTCGCACTGGGACCCCTTTATATATATAACTAACCTCTCCTAGGGTTTACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaatataacgaatccgccgccggcgtcatctcctcctcccacctcgactcgccttggtcgccgtcggcggccatttcgtcgccgcgcggcgagccgcccatgttgagctcgcggcggatctgatgggcttgttgtgatctcctgcag

Basic information

species Zea mays
transcript GRMZM2G135727_T01
intron # 1
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|211171357|gb|FL404322.1|FL404322
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCSACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211090378|gb|FL409094.1|FL409094
EST:     GCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211310954|gb|FL375976.1|FL375976
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGYACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211090116|gb|FL396349.1|FL396349
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211275659|gb|FL423577.1|FL423577
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211127326|gb|FL391785.1|FL391785
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211449441|gb|FL371193.1|FL371193
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211143441|gb|FL420875.1|FL420875
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAKGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211045132|gb|FL385507.1|FL385507
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAG
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAG
EST: gi|211390616|gb|FL418025.1|FL418025
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAKGAGGAGGGCAGGAKKT-TCGCACCGTAAGTTCGAGCACCC
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGA--TGTCGCACCGTAAGTTCGAGCACCC
EST: gi|211512093|gb|FL429019.1|FL429019
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211054045|gb|FL387661.1|FL387661
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|78122260|gb|DV540644.1|DV540644
EST:     CTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: CTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211332072|gb|FL381804.1|FL381804
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211392488|gb|FL384047.1|FL384047
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211522091|gb|FL426849.1|FL426849
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211158132|gb|FL392760.1|FL392760
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211221704|gb|FL402207.1|FL402207
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCG
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGG-AAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCG
EST: gi|211080224|gb|FL420002.1|FL420002
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211209612|gb|FL397447.1|FL397447
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211390088|gb|FL395682.1|FL395682
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211013857|gb|FL374962.1|FL374962
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211045469|gb|FL401139.1|FL401139
EST:     ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211290580|gb|FL410149.1|FL410149
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211045111|gb|FL385036.1|FL385036
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211076737|gb|FL399050.1|FL399050
EST:     ATTGTGGCTCCTCATTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211143439|gb|FL420873.1|FL420873
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211490707|gb|FL394879.1|FL394879
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211209607|gb|FL397442.1|FL397442
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGGAGCACCCG
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTC-GAGCACCCG
EST: gi|211118724|gb|FL427527.1|FL427527
EST:     GCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211275116|gb|FL386915.1|FL386915
EST:     GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: GCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
EST: gi|211045112|gb|FL385037.1|FL385037
EST:     ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAG                         GTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA
genomic: ACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaat ... tctcctgcagGTAAGGAAGAGGAGGAGGGCAGGATGTCGCACCGTAAGTTCGAGCACCCGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGAAACCCTCGCACTGGGACCCCTTTATATATATAACTAACCTCTCCTAGGGTTTACGCGCATTGTGGCTCCTCACTTCTGCGCCGCCACCCACTACAGgtgaatgaatataacgaatccgccgccggcgtcatctcctcctcccacctcgactcgccttggtcgccgtcggcggccatttcgtcgccgcgcggcgagccgcccatgttgagctcgcggcggatctgatgggcttgttgtgatctcctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC