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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaactttcaatattcttttacttgttagcttcactgcatacatgattttccacaaatccattgtccaagaccgagaatctgagaacatttctggttgcagACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATTGTCAGCAG

Basic information

species Arabidopsis thaliana
transcript AT3G56310.2
intron # 11
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|164139856|gb|ES215801.1|ES215801
EST:     TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAG                         ACCCACTTGGTGTTACAAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGA
genomic: TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAGgtgaactttc ... ctggttgcagACCCACTTGGTGTT-CAA-GGAAGGAAAATTCAAGCCAATGGAGAAAATGA
EST: gi|124762489|gb|EH852619.1|EH852619
EST:     CTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAG                         ACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAAGAAAATGAT
genomic: CTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAGgtgaactttc ... ctggttgcagACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGA-GAAAATGAT
EST: gi|116482858|gb|EG525450.1|EG525450
EST:     TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAG                         ACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATT
genomic: TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAGgtgaactttc ... ctggttgcagACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATT
EST: gi|163976055|gb|ES152703.1|ES152703
EST:     TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAG                         ACCCACTTGGTGTTCAAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGAT
genomic: TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAGgtgaactttc ... ctggttgcagACCCACTTGGTGTTCAA-GGAAGGAAAATTCAAGCCAATGGAGAAAATGAT
EST: gi|86087190|gb|DR382949.1|DR382949
EST:     TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAG                         ACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATT
genomic: TGAAACTTTGGAGATTTTGAGTAATAAGGAGATTATCGCTGTTAACCAAGgtgaactttc ... ctggttgcagACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttccacaaatccattgtccaagaccgagaatctgagaacatttctggttgcagACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATTGTCAGCAG
                                        catttct  CT-rich tract
                                      aacattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaactttcaatattcttttacttgttagcttcactgcatacatgattttccacaaatccattgtccaagaccgagaatctgagaacatttctggttgcagACCCACTTGGTGTTCAAGGAAGGAAAATTCAAGCCAATGGAGAAAATGATTGTCAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA