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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAGGAGGAAGACCAGGAGAACTTTTGATTGAATTCTTTGATTCCTCAGATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaatatctctctctctctctctctctctctctctctgtgctctattcaatctggcttatgatgtgtgtttatgtcgatgtgaggttattaagcttgttgacttgttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G27230.1
intron # 2
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:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458861|gb|EG501453.1|EG501453
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCGATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458951|gb|EG501543.1|EG501543
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116433498|gb|EG476090.1|EG476090
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116433502|gb|EG476094.1|EG476094
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458772|gb|EG501364.1|EG501364
EST:     TGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: TGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116433514|gb|EG476106.1|EG476106
EST:     ATAAAACTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458817|gb|EG501409.1|EG501409
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458539|gb|EG501131.1|EG501131
EST:     TGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: TGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458872|gb|EG501464.1|EG501464
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458929|gb|EG501521.1|EG501521
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116433509|gb|EG476101.1|EG476101
EST:     ATAAAACTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116433527|gb|EG476119.1|EG476119
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458883|gb|EG501475.1|EG501475
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
EST: gi|116458907|gb|EG501499.1|EG501499
EST:     ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAG                         AAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC
genomic: ATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaat ... cttgttgtagAAAGCAAGGAGGGAGAAGAAAAAAGCTGATGCAGCCATGGCCATTAAGTAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCAGGAGGAAGACCAGGAGAACTTTTGATTGAATTCTTTGATTCCTCAGATAAAGCTGCCCGAGTGATTGCTGGGACTGGAACTTCAATGGAGGCGCAGgtaagctaatatctctctctctctctctctctctctctctctgtgctctattcaatctggcttatgatgtgtgtttatgtcgatgtgaggttattaagcttgttgacttgttgtag

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG