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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTGCTATTCGGGAGAATCGGATTACCACCGTGGAGTGTTTGTCTGGTACTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgcttaagcctaatttcctatctgattgaatttcttcatcctatagaacttctcatagaaatttggagtcttttcctttgcttttcag

Basic information

species Arabidopsis thaliana
transcript AT5G11520.1
intron # 5
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|301501584|gb|HO207124.1|HO207124
EST:     CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAG                         AAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
genomic: CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgctt ... tgcttttcagAAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
EST: gi|301502006|gb|HO207546.1|HO207546
EST:     CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAG                         AAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
genomic: CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgctt ... tgcttttcagAAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
EST: gi|301501550|gb|HO207090.1|HO207090
EST:     CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAG                         AAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
genomic: CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgctt ... tgcttttcagAAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
EST: gi|301501070|gb|HO206610.1|HO206610
EST:     CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAG                         AAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
genomic: CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgctt ... tgcttttcagAAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
EST: gi|116468511|gb|EG511103.1|EG511103
EST:     CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAG                         AAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC
genomic: CTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgctt ... tgcttttcagAAAACAATTTACATCACTCAGCCAACATGGGGAAATCATCCAAAGATTTTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCCTGCTATTCGGGAGAATCGGATTACCACCGTGGAGTGTTTGTCTGGTACTGGTTCTCTGAGAGTTGGAGGAGAGTTTTTGGCTAAACATTATCATCAGgttgatgcttaagcctaatttcctatctgattgaatttcttcatcctatagaacttctcatagaaatttggagtcttttcctttgcttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA