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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggggaaactttgagacataaattcaatcagaacatttttcttttgtttaagatatgtgtgatcgaccttaaagtttgcttatgcctttaaatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAATCCGGCGCAGATCATCAGCCAGACACCATAGCAACTCATCCATCAGGTAC

Basic information

species Arabidopsis thaliana
transcript AT5G27230.1
intron # 3
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|116458839|gb|EG501431.1|EG501431
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458861|gb|EG501453.1|EG501453
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAG
EST: gi|116458951|gb|EG501543.1|EG501543
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCCGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458562|gb|EG501154.1|EG501154
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116458628|gb|EG501220.1|EG501220
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116433498|gb|EG476090.1|EG476090
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458650|gb|EG501242.1|EG501242
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116458728|gb|EG501320.1|EG501320
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116433502|gb|EG476094.1|EG476094
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458606|gb|EG501198.1|EG501198
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116433514|gb|EG476106.1|EG476106
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458584|gb|EG501176.1|EG501176
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116458539|gb|EG501131.1|EG501131
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAAT
EST: gi|116458872|gb|EG501464.1|EG501464
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458929|gb|EG501521.1|EG501521
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAG-TTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116433509|gb|EG476101.1|EG476101
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458883|gb|EG501475.1|EG501475
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG
EST: gi|116458907|gb|EG501499.1|EG501499
EST:     CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAG                         TGAAGCAGCCCGAGGTTGTGTG
genomic: CAAACGTCCAAGATTAACTGAACCAACAGCTCCTTCTCAGAATTTAACAGgtatgtatca ... aatcatccagTGAAGCAGCCCGAGGTTGTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttaagatatgtgtgatcgaccttaaagtttgcttatgcctttaaatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAATCCGGCGCAGATCATCAGCCAGACACCATAGCAACTCATCCATCAGGTAC
                                         tttaaatcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggggaaactttgagacataaattcaatcagaacatttttcttttgtttaagatatgtgtgatcgaccttaaagtttgcttatgcctttaaatcatccagTGAAGCAGCCCGAGGTTGTGTGCGTTCCTACTGGGAAGCAAGTTAAAGAATCCGGCGCAGATCATCAGCCAGACACCATAGCAACTCATCCATCAGGTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - -acataaa
- - - - - - - - - - - - - - cagaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccttaaa