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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCCGCAGAAAACCCTATTGCTCCCCTTTGCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacatactctgcttctactctgtttctctaaatttacatatttactgaatgtaatggaaggaattatccgagtattaattgtgatcttgttcgtccttttatcag

Basic information

species Arabidopsis thaliana
transcript AT4G25740.2
intron # 1
splice site 5'
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|86053927|gb|DR349684.1|DR349684
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAA-STCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053984|gb|DR349741.1|DR349741
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAA-STCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|152035849|gb|BP863154.2|BP863154
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGAGGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053897|gb|DR349654.1|DR349654
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053987|gb|DR349744.1|DR349744
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAA-STCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053948|gb|DR349705.1|DR349705
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAA-STCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053923|gb|DR349680.1|DR349680
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053992|gb|DR349749.1|DR349749
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053966|gb|DR349723.1|DR349723
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAG-TCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053903|gb|DR349660.1|DR349660
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGSAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|125223338|gb|EL237423.1|EL237423
EST:     GCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCG
genomic: GCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCG
EST: gi|152034625|gb|BP833134.2|BP833134
EST:     CTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: CTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053938|gb|DR349695.1|DR349695
EST:     TCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: TCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053905|gb|DR349662.1|DR349662
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|152033879|gb|BP818939.2|BP818939
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053975|gb|DR349732.1|DR349732
EST:     TCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: TCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053955|gb|DR349712.1|DR349712
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053953|gb|DR349710.1|DR349710
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAA-STCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053959|gb|DR349716.1|DR349716
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053960|gb|DR349717.1|DR349717
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053899|gb|DR349656.1|DR349656
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
EST: gi|86053909|gb|DR349666.1|DR349666
EST:     GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATG                         ATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG
genomic: GCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacat ... cttttatcagATTATCTCAGAGAACAATCGCAGAGAGATCTGCAAATACCTTTTCAAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCCGCAGAAAACCCTATTGCTCCCCTTTGCTCAAGCTCAGTGCCTCTTTGCAGCGAAAGCTCAACCAACAAGACGATGgtatacacatactctgcttctactctgtttctctaaatttacatatttactgaatgtaatggaaggaattatccgagtattaattgtgatcttgttcgtccttttatcag

- - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA