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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatccttgtctttgttactttgaatagtcatgtgagtcaagtgttgattgtttgatgtaagtgttttgtttgttgaatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT

Basic information

species Arabidopsis thaliana
transcript AT2G18230.1
intron # 2
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|116390031|gb|EG432623.1|EG432623
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAGAAGCTCCTACTGTTTTCAACTGT
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
EST: gi|116390040|gb|EG432632.1|EG432632
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAAAAGCTCCTACTGTTTTCAACTGT
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
EST: gi|116443161|gb|EG485753.1|EG485753
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAGAAGCTCCTACTGTTTTCAACTGT
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
EST: gi|116390041|gb|EG432633.1|EG432633
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAGAAGCTCCTACTGTTTTCAACTGT
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
EST: gi|116451434|gb|EG494026.1|EG494026
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAGAAGCTCCTACTGTTTTCAACTGT
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
EST: gi|116451435|gb|EG494027.1|EG494027
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAGAAGCTCCTACTGTTTTCAACTGT
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
EST: gi|125087143|gb|EL146374.1|EL146374
EST:     CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTG                         GTCCAGAAGCTCCTACTGTTTTC
genomic: CTTCACTCACAGATCAGCTGCTGCTCATCCTTGGCATGACTTGGAGATTGgtaagaatcc ... aatctttcagGTCCAGAAGCTCCTACTGTTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgagtcaagtgttgattgtttgatgtaagtgttttgtttgttgaatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT
                                               tctttc  CT-rich tract
                                 ttttgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaatccttgtctttgttactttgaatagtcatgtgagtcaagtgttgattgtttgatgtaagtgttttgtttgttgaatctttcagGTCCAGAAGCTCCTACTGTTTTCAACTGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC