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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATCGTGACCTAACTCTTTCTTTAATTGCATTGTGTAGGAGGCTGTTGTAAAGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaagtaactggtctaataagagattttggggtttcattcttggtttttctgagatgtgtttataatcag

Basic information

species Arabidopsis thaliana
transcript AT5G64130.2
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|124750706|gb|EH840836.1|EH840836
EST:     TCTCATTTCCAAG                         GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG
genomic: TCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG
EST: gi|124973294|gb|EL046936.1|EL046936
EST:     AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAG                         GATCATGAGCGAGCATACT
genomic: AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGAGCGAGCATACT
EST: gi|47828491|gb|CK118175.1|CK118175
EST:     CACCTCTCATTTCCAAG                         GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG
genomic: CACCTCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAG
EST: gi|164004020|gb|ES013701.1|ES013701
EST:     GGCTCATGCCAGAGAAACCACCTCTCATTTCCAAG                         GATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGCAA
genomic: GGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGAGCGAGCATACTTTGACTCAGCTGATTGGGCTCTTGGAAAGCAA
EST: gi|124977070|gb|EL050440.1|EL050440
EST:     GAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAAG                         GATCATGAGCGAGCATACTTT
genomic: GAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAA-Ggtaagtgaag ... ttataatcagGATCATGAGCGAGCATACTTT
EST: gi|164047227|gb|ES144642.1|ES144642
EST:     AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAG                         GATCATGAGCGAGCATACTTTGACTCAGCTG
genomic: AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGAGCGAGCATACTTTGACTCAGCTG
EST: gi|125297372|gb|EL311457.1|EL311457
EST:     AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAG                         GATCATGAGCGAGCATACTTTGACTCAGCTG
genomic: AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGAGCGAGCATACTTTGACTCAGCTG
EST: gi|163968699|gb|ES193949.1|ES193949
EST:     AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAG                         GATCATGAAGCGAGCATACTTTGACTCAGCTG
genomic: AGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaag ... ttataatcagGATCATGA-GCGAGCATACTTTGACTCAGCTG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATCGTGACCTAACTCTTTCTTTAATTGCATTGTGTAGGAGGCTGTTGTAAAGAAGAAGTATGGAGGGCTCATGCCAAAGAAACCACCTCTCATTTCCAAGgtaagtgaagtaactggtctaataagagattttggggtttcattcttggtttttctgagatgtgtttataatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA