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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcgccaactccatctcctcatcctcatcccgttacctggccgctctgattgccgccatccttgctctattatggaataactgctttgctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACAG

Basic information

species Zea mays
transcript GRMZM2G374779_T03
intron # 2
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|211340859|gb|FL372915.1|FL372915
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211357926|gb|FL387018.1|FL387018
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211458917|gb|FL402420.1|FL402420
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211319230|gb|FL384888.1|FL384888
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTG-CT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|101397865|gb|EB820809.1|EB820809
EST:     GAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211298857|gb|FL392428.1|FL392428
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211158456|gb|FL415219.1|FL415219
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211533538|gb|FL409967.1|FL409967
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211487556|gb|FL382361.1|FL382361
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211530844|gb|FL420796.1|FL420796
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|32868245|gb|CF007927.1|CF007927
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
EST: gi|211504683|gb|FL413307.1|FL413307
EST:     AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCT                         AGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA
genomic: AAGTTCACTAAACTTCTCGCCGATTGGTCCGGCTCCGACGGCTACTGCCTgtactcgcca ... ctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctgattgccgccatccttgctctattatggaataactgctttgctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACAG
                               gaataac  putative branch site (score: 2)
                                     ctgctttgctttcccc  CT-rich tract
                      tctattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactcgccaactccatctcctcatcctcatcccgttacctggccgctctgattgccgccatccttgctctattatggaataactgctttgctttccccagAGAGATTGGCAGAGGAACATGGGACTCTTGGGTCATGCCTCTTCAACAACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA