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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTATCTTAATCTTCCATCTGATGTTGTTCCTGCTACTTTGAAGAAGTCAGCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaactctttgcttaacccatttcatgtctggcaaaaactttttttttttttaatttgtttgacatggtttgggtttctttgtatttcag

Basic information

species Arabidopsis thaliana
transcript AT5G52650.1
intron # 3
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|47830180|gb|CK119864.1|CK119864
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|164001890|gb|ES107280.1|ES107280
EST:     TTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: TTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|164195955|gb|ES042584.1|ES042584
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCC
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCC
EST: gi|164026373|gb|ES074328.1|ES074328
EST:     GCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|125310156|gb|EL324241.1|EL324241
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCG
EST: gi|47830738|gb|CK120422.1|CK120422
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|86085719|gb|DR381478.1|DR381478
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|124867528|gb|EH951965.1|EH951965
EST:     CCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: CCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|47828157|gb|CK117841.1|CK117841
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|47831024|gb|CK120708.1|CK120708
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|86075270|gb|DR371027.1|DR371027
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|86082450|gb|DR378209.1|DR378209
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|164122000|gb|EL976622.1|EL976622
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGA
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGA
EST: gi|163992488|gb|ES023877.1|ES023877
EST:     GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: GCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
EST: gi|124933625|gb|EL010767.1|EL010767
EST:     CCCACCTGGTGATCGCTCAAG                         AGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG
genomic: CCCACCTGGTGATCGCTCAAGgtgattaact ... tgtatttcagAGGACCTCGCCATGAAGGAGGAGACCGTCCCAGGTTTGGTGACCGTGATGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTATCTTAATCTTCCATCTGATGTTGTTCCTGCTACTTTGAAGAAGTCAGCTAAGCCTGGTGGTCGTCCATTTGGTGGCCCACCTGGTGATCGCTCAAGgtgattaactctttgcttaacccatttcatgtctggcaaaaactttttttttttttaatttgtttgacatggtttgggtttctttgtatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG