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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttgcaatttgttttcccccttgatagttgatgttaatattttgttattttagctttgtgtttttgagcttattgtaattggtgggagattctcttctgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAGCCACTTCTGGTGAGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGA

Basic information

species Arabidopsis thaliana
transcript AT1G17370.2
intron # 8
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|116486725|gb|EG529317.1|EG529317
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
EST: gi|116386087|gb|EG428679.1|EG428679
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
EST: gi|116486731|gb|EG529323.1|EG529323
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATAGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
EST: gi|125032627|gb|EL104896.1|EL104896
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAG
EST: gi|125278859|gb|EL292944.1|EL292944
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCG
EST: gi|116486728|gb|EG529320.1|EG529320
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
EST: gi|116386137|gb|EG428729.1|EG428729
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
EST: gi|116477129|gb|EG519721.1|EG519721
EST:     GATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGA
genomic: GATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGG-CTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGA
EST: gi|125175853|gb|EL195594.1|EL195594
EST:     ATGCCCAGACTGCAATAGATGAGATAACTG                         GGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG
genomic: ATGCCCAGACTGCAATAGATGAGATAACTGgtgagtgttg ... tgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttgtgtttttgagcttattgtaattggtgggagattctcttctgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAGCCACTTCTGGTGAGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGA
                                     ttctcttctgcttttc  CT-rich tract
                 ttattgtaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgttgcaatttgttttcccccttgatagttgatgttaatattttgttattttagctttgtgtttttgagcttattgtaattggtgggagattctcttctgcttttcagGGAAATGGCTTGGTTCCAGGCAGATACGTTGCAACTGGGCGACAAAGGGAGCCACTTCTGGTGAGGACAAACAGAGCTCTGATTCCAAAAGCGTCGTGGA

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