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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatacaaacacttttgcgtattgaaacatttagaaatctactgacattaagtattaattaacatggtctcttcgtcatctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGAGGGTAGATTCCTCCTCACTCTCGGTCCTTGGGTCTCTCATTTTGCATGA

Basic information

species Arabidopsis thaliana
transcript AT4G23850.1
intron # 18
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|125207401|gb|EL222355.1|EL222355
EST:     AAAGGCCTCAGTTGCTGAAATACTACCAG                         AGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
genomic: AAAGGCCTCAGTTGCTGAAATACTACCAGgtaatacaaa ... catctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
EST: gi|124829235|gb|EH913830.1|EH913830
EST:     TTACGCCGACCTTCAAAAAGAAAAGGCCTCAGTTGCTGAAATACTACCAG                         AGTGTGATCGACGAAATGTACAAGACCATAA
genomic: TTACGCCGACCTTCAAAAAGAAAAGGCCTCAGTTGCTGAAATACTACCAGgtaatacaaa ... catctgccagAGTGTGATCGACGAAATGTACAAGACCATAA
EST: gi|116427901|gb|EG470493.1|EG470493
EST:     TTACGCCGACCTTCAAAAAGAAAAGCCCTCAGTTGCTGAAATACTACCAG                         AGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
genomic: TTACGCCGACCTTCAAAAAGAAAAGGCCTCAGTTGCTGAAATACTACCAGgtaatacaaa ... catctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
EST: gi|116458240|gb|EG500832.1|EG500832
EST:     TTACGCCGACCTTCAAAAAGAAAAGGCCTCAGTTGCTGAAATACTACCAG                         AGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
genomic: TTACGCCGACCTTCAAAAAGAAAAGGCCTCAGTTGCTGAAATACTACCAGgtaatacaaa ... catctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
EST: gi|125043029|gb|EL115298.1|EL115298
EST:     AGTTGCTGAAATACTACCAG                         AGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA
genomic: AGTTGCTGAAATACTACCAGgtaatacaaa ... catctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagaaatctactgacattaagtattaattaacatggtctcttcgtcatctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGAGGGTAGATTCCTCCTCACTCTCGGTCCTTGGGTCTCTCATTTTGCATGA
                                    tctcttcgtcatct  CT-rich tract
             acattaagtattaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatacaaacacttttgcgtattgaaacatttagaaatctactgacattaagtattaattaacatggtctcttcgtcatctgccagAGTGTGATCGACGAAATGTACAAGACCATAAATGCAAAATTTGCTTCCAGAGGGTAGATTCCTCCTCACTCTCGGTCCTTGGGTCTCTCATTTTGCATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC