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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGATGGTTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcattggcacacaccttcatcttgaggcttcttgtaaccttctgtattttatgtttcttgtaactgaatgtttgtgtagtatatatattttcaa...

Basic information

species Arabidopsis thaliana
transcript AT2G42240.2
intron # 4
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|116391480|gb|EG434072.1|EG434072
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
EST: gi|116391488|gb|EG434080.1|EG434080
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAGCACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
EST: gi|116391485|gb|EG434077.1|EG434077
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
EST: gi|116391481|gb|EG434073.1|EG434073
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
EST: gi|116391487|gb|EG434079.1|EG434079
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAGCACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
EST: gi|125089756|gb|EL148005.1|EL148005
EST:     TGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTAG                         GTTTTGGCAGCTTTCAAACTCCTGGAATG
genomic: TGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCT-Ggtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATG
EST: gi|116391483|gb|EG434075.1|EG434075
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
EST: gi|19876319|gb|AU237150.1|AU237150
EST:     TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTG                         GTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA
genomic: TTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcat ... gcactagcagGTTTTGGCAGCTTTCAAACTCCTGGAATGAGTAGTTCTGCTTACAACACAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGATGGTTGGGAAAGCTTGAAAAAACTCAAGTCTTGGAACACTACTACTGAATCTGgtaagatcattggcacacaccttcatcttgaggcttcttgtaaccttctgtattttatgtttcttgtaactgaatgtttgtgtagtatatatattttcaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttcatc