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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaaaatacaattacctactatatttatactattttgtatgtgtgggtttgttagaagcttaatatgaaaaatgggatggttttggaacacag

Basic information

species Arabidopsis thaliana
transcript AT4G12890.1
intron # 2
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|164074163|gb|ES046631.1|ES046631
EST:     GCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAG
genomic: GCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAG
EST: gi|164108839|gb|ES029322.1|ES029322
EST:     CTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAGGATACGAATGAGTGG
genomic: CTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAAGATACGAATGAATGG
EST: gi|86079855|gb|DR375612.1|DR375612
EST:     GCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAGGATACGAATGAGTGG
genomic: GCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAAGATACGAATGAATGG
EST: gi|164014697|gb|ES176219.1|ES176219
EST:     AACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAGGATACGAATGAGTGG
genomic: AACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAAGATACGAATGAATGG
EST: gi|163986202|gb|EL991987.1|EL991987
EST:     GCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCATACG
genomic: GCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCATACG
EST: gi|164012102|gb|ES075461.1|ES075461
EST:     GCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCA
genomic: GCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCA
EST: gi|164035774|gb|ES096601.1|ES096601
EST:     GCAAACTAAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCATACGCTGCGTTGAAAA
genomic: GCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCATACGCTGCGTTGAAAA
EST: gi|164167490|gb|ES012994.1|ES012994
EST:     GAAGCTTGCGGTATAAGAACTTTGCCCGATCCG                         AAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAGGATACGAATG
genomic: GAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaa ... tggaacacagAAATTGCAGTACAAGTTCATACGCTGCGTTGAAAAAGATACGAATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGGTGAAGAGGAATGCAAACTTAACGCTCTCGAAGCTTGCGGTATAAGAACTTTGCCCGATCCGgtatagaaaaaatacaattacctactatatttatactattttgtatgtgtgggtttgttagaagcttaatatgaaaaatgggatggttttggaacacag

- - - - - - - - - - - - - - - - - - - - - - -  AAGAAC