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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggagaagattttgactctttcttcctacttttctacagtgtgggtcagttccatatattccagatgatcgttttcaatatagttcaaattacgaatcttaacaagcatatgttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAGGAGACTGAAACTGGAGACTTCTTGCAACAAATCCGAACACAA

Basic information

species Arabidopsis thaliana
transcript AT1G29170.1
intron # 6
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|116451506|gb|EG494098.1|EG494098
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116428891|gb|EG471483.1|EG471483
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116428893|gb|EG471485.1|EG471485
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116451428|gb|EG494020.1|EG494020
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116429011|gb|EG471603.1|EG471603
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116429017|gb|EG471609.1|EG471609
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116451486|gb|EG494078.1|EG494078
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGATGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116428890|gb|EG471482.1|EG471482
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116428900|gb|EG471492.1|EG471492
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116428901|gb|EG471493.1|EG471493
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116429025|gb|EG471617.1|EG471617
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116428892|gb|EG471484.1|EG471484
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116429010|gb|EG471602.1|EG471602
EST:     AAAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAATGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116429019|gb|EG471611.1|EG471611
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116429024|gb|EG471616.1|EG471616
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
EST: gi|116451430|gb|EG494022.1|EG494022
EST:     AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAG                         GCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG
genomic: AGAACGAACTGCCTAGCATGGTGACTTCTGCTCCTAAACCAGAAATTAAGgtatggagaa ... gttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatcgttttcaatatagttcaaattacgaatcttaacaagcatatgttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAGGAGACTGAAACTGGAGACTTCTTGCAACAAATCCGAACACAA
                              tcttaac  putative branch site (score: 2)
                                            tgttctc  putative PPT
     ttttcaatatagttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggagaagattttgactctttcttcctacttttctacagtgtgggtcagttccatatattccagatgatcgttttcaatatagttcaaattacgaatcttaacaagcatatgttctcatagGCCCATCTGAAGAATAATGTCAGGGAGGAGAAACAAAGTGCCAACGCAAAGGAGACTGAAACTGGAGACTTCTTGCAACAAATCCGAACACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA