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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttctttccatgtgtcctacgtcagtatattggacgaatagttaattgctctctaacctgcccttaattacatgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA

Basic information

species Arabidopsis thaliana
transcript AT4G19610.1
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|116458756|gb|EG501348.1|EG501348
EST:     TGGAAGTCTAGACAAAATTATCCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TGGAAGTCTAGACAAAATTATCC-TCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116458749|gb|EG501341.1|EG501341
EST:     TTGGAAGTCTAAACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413076|gb|EG455668.1|EG455668
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTTTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413073|gb|EG455665.1|EG455665
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413069|gb|EG455661.1|EG455661
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413075|gb|EG455667.1|EG455667
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116458754|gb|EG501346.1|EG501346
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413074|gb|EG455666.1|EG455666
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTTTGGAGCCGGCTGAGGCACGCGCAGCTTTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116458748|gb|EG501340.1|EG501340
EST:     TTGGAAGTCTAAACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116458745|gb|EG501337.1|EG501337
EST:     TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413072|gb|EG455664.1|EG455664
EST:     TTGGAAGTCTGGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
EST: gi|116413070|gb|EG455662.1|EG455662
EST:     TTGGAAGTCTGGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTG                         GCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA
genomic: TTGGAAGTCTAGACAAAATTATCCTCCCTCCGACGAAGACGATGGCCTTGgtacttttct ... tgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattggacgaatagttaattgctctctaacctgcccttaattacatgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA
         aatagttaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacttttctttccatgtgtcctacgtcagtatattggacgaatagttaattgctctctaacctgcccttaattacatgacctgcagGCTGTGTTTCTGGAGCCGGCTGAGGCACGCGCAGCTCTTAAGGGAATGGCATACAAGCGTTACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC