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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttttgagaattattggtgttgtgtgcatatatcatcttcagcaacctgcattgtcagttgttacagatgcctgaaataaattttctttttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATTAACAATCATCAACAATCTCTTGAAATACCATCCG

Basic information

species Arabidopsis thaliana
transcript AT5G04740.1
intron # 4
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|164212579|gb|ES107858.1|ES107858
EST:     GGATCCATTAAGCAGACCAAA-TTTCTATAACGAAACG                         AGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
genomic: GGATCCATTAAGCAGACCAAATTTTCTATAACGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
EST: gi|125072716|gb|EL137308.1|EL137308
EST:     TCTCAACTGAAGGATCCATTAAGCAGACCAAATTTTCTATAAACGAAACG                         AGACACTGGCCGGAAAGTGGAAGATCC
genomic: TCTCAACTGAAGGATCCATTAAGCAGACCAAATTTTCTATAA-CGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAAGATCC
EST: gi|164073327|gb|EL982896.1|EL982896
EST:     CAACTGAAGGGTCCATTAAGCAGACCAAATTTTCTATAACGAAACG                         AGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
genomic: CAACTGAAGGATCCATTAAGCAGACCAAATTTTCTATAACGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
EST: gi|125021728|gb|EL093997.1|EL093997
EST:     TGAAGGATCCATTAAGCAGACCAAATTTTCTATAACGAAACG                         AGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
genomic: TGAAGGATCCATTAAGCAGACCAAATTTTCTATAACGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
EST: gi|116403963|gb|EG446555.1|EG446555
EST:     ATCTCAACTGAAGGATCCATTAAGCAGACCAAATCTTCTATAACGAAACG                         AGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
genomic: GTCTCAACTGAAGGATCCATTAAGCAGACCAAATTTTCTATAACGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
EST: gi|124994550|gb|EL066819.1|EL066819
EST:     CAGACCAAATTTTCTATAACGAAACG                         AGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
genomic: CAGACCAAATTTTCTATAACGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATT
EST: gi|164139721|gb|ES202520.1|ES202520
EST:     GTCTCAACTGAAGGATCCATTAAGCAGACCAAATTTTCTATAACGAAACG                         AGACACTGGCCGGAAAGTGGAA
genomic: GTCTCAACTGAAGGATCCATTAAGCAGACCAAATTTTCTATAACGAAACGgtaagaaagg ... ttcacaccagAGACACTGGCCGGAAAGTGGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acctgcattgtcagttgttacagatgcctgaaataaattttctttttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATTAACAATCATCAACAATCTCTTGAAATACCATCCG
                                     ttttctttttcacacc  CT-rich tract
                            tgaaataaattttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttttgagaattattggtgttgtgtgcatatatcatcttcagcaacctgcattgtcagttgttacagatgcctgaaataaattttctttttcacaccagAGACACTGGCCGGAAAGTGGAAGATCCTGACTTGTTGGAACAAATCCGATTAACAATCATCAACAATCTCTTGAAATACCATCCG

gtttttg
- - - - - - - - - - - - - - - - - - - - cagcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaataaa