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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaattgttgtcatttatgaaatcaaatattttcgtgtttgtgtggtgttcgctgagttttcctaaactgctttgatttttgtatcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCTTCACTGCAAACATCTTGAACGAAGAGCAATGCAAAGAGTTGAAGATGGG

Basic information

species Arabidopsis thaliana
transcript AT2G24200.2
intron # 4
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|116437336|gb|EG479928.1|EG479928
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|116410702|gb|EG453294.1|EG453294
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTG
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTG
EST: gi|116409488|gb|EG452080.1|EG452080
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|116409481|gb|EG452073.1|EG452073
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|116409480|gb|EG452072.1|EG452072
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|116409617|gb|EG452209.1|EG452209
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|116409487|gb|EG452079.1|EG452079
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|116409618|gb|EG452210.1|EG452210
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
EST: gi|47830794|gb|CK120478.1|CK120478
EST:     AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTG                         CTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT
genomic: AATTTTCGGGAGAGAGCTCATTAATTCTCCTGCCAATGTGCTTACTCCTGgtatgaattg ... atcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgtggtgttcgctgagttttcctaaactgctttgatttttgtatcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCTTCACTGCAAACATCTTGAACGAAGAGCAATGCAAAGAGTTGAAGATGGG
                                              tcgtttc  CT-rich tract
                                 tttgatttttgtat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgaattgttgtcatttatgaaatcaaatattttcgtgtttgtgtggtgttcgctgagttttcctaaactgctttgatttttgtatcgtttcagCTGTACTAGCTGAGGAAGCAGCAAAGGTGGCTTCTACGTACAGTGATGTCTTCACTGCAAACATCTTGAACGAAGAGCAATGCAAAGAGTTGAAGATGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG