Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTACTCATGGGGTGCTCTTAACCCTTGTAGAGCGGTTCCTTTTGTATGATCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctgcttcttgtttttagactaagtatcagtagttgttgcccaaaaatctgtaacttcatgtgaattgctctgcag

Basic information

species Arabidopsis thaliana
transcript AT5G27230.1
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|116458839|gb|EG501431.1|EG501431
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458861|gb|EG501453.1|EG501453
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGTGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458951|gb|EG501543.1|EG501543
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116433498|gb|EG476090.1|EG476090
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116433502|gb|EG476094.1|EG476094
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116433514|gb|EG476106.1|EG476106
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458817|gb|EG501409.1|EG501409
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458872|gb|EG501464.1|EG501464
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458929|gb|EG501521.1|EG501521
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAG-AAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116433509|gb|EG476101.1|EG476101
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116433527|gb|EG476119.1|EG476119
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458883|gb|EG501475.1|EG501475
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
EST: gi|116458907|gb|EG501499.1|EG501499
EST:     TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTG                         GTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT
genomic: TCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctg ... tgctctgcagGTGCGGTTGAAACGCTAAAGAAAAAGGAAGAGTATCTTGCAACACTGAAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACTACTCATGGGGTGCTCTTAACCCTTGTAGAGCGGTTCCTTTTGTATGATCATGCCCCAAAACTGTTTCGGCTTCTGGGGTTAGAAGAGAAGGTTTCTGgtaaggcctgcttcttgtttttagactaagtatcagtagttgttgcccaaaaatctgtaacttcatgtgaattgctctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA