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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttataaattatattcagctatcttaatatttttatcttaaacttattctggaagctggtatgttattcaatgagaatcacttagctttcacagtataaaacattcatgtttttgatgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTTGGTCGTCACTTCACAAATCCAGAGAAGCTTAAAGAG

Basic information

species Arabidopsis thaliana
transcript AT5G48090.1
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|116390557|gb|EG433149.1|EG433149
EST:     CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAG                         AAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
genomic: CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAGgttataaatt ... tgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
EST: gi|116390564|gb|EG433156.1|EG433156
EST:     CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAG                         AAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
genomic: CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAGgttataaatt ... tgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
EST: gi|116390511|gb|EG433103.1|EG433103
EST:     CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAG                         AAAAAGCTTGAAATTTCGCCTTTTCTCCATGTTATGCGCTACACATCGTTT
genomic: CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAGgttataaatt ... tgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
EST: gi|116390558|gb|EG433150.1|EG433150
EST:     CAAGAGCTTTATTTGACCCAGATAGTCTACTCCAACTCATGAAGCATAAG                         AAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
genomic: CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAGgttataaatt ... tgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
EST: gi|116390510|gb|EG433102.1|EG433102
EST:     CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAG                         AAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
genomic: CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAGgttataaatt ... tgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
EST: gi|116390522|gb|EG433114.1|EG433114
EST:     CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAG                         AAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT
genomic: CAAGAGCTTTATTTGACCCAGATAGCCTACTCCAACTCATGAAGCATAAGgttataaatt ... tgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagaatcacttagctttcacagtataaaacattcatgtttttgatgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTTGGTCGTCACTTCACAAATCCAGAGAAGCTTAAAGAG
                                       ttttgat  putative branch site (score: 4)
                       tataaaacattcat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttataaattatattcagctatcttaatatttttatcttaaacttattctggaagctggtatgttattcaatgagaatcacttagctttcacagtataaaacattcatgtttttgatgaactgcagAAAAAGCTTGAAATTTCGCCTTTTCTCCATGGTATGCGCTACACATCGTTTGGTCGTCACTTCACAAATCCAGAGAAGCTTAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC