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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCAATGATTTCAATGGTGGAGACGCTATGAATTCAGATGAATTGCTCATTCATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaaaaacttcactcatcaaatcaacaccaatcatagagattcactttctgattcttatatttcccaatatttgttcag

Basic information

species Arabidopsis thaliana
transcript AT5G07440.1
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|116402756|gb|EG445348.1|EG445348
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
EST: gi|116403318|gb|EG445910.1|EG445910
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
EST: gi|116401898|gb|EG444490.1|EG444490
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
EST: gi|124934558|gb|EL011619.1|EL011619
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAG
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAG
EST: gi|116401662|gb|EG444254.1|EG444254
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
EST: gi|301502280|gb|HO207820.1|HO207820
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
EST: gi|125188253|gb|EL203207.1|EL203207
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTA
EST: gi|116400111|gb|EG442703.1|EG442703
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAGGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
EST: gi|116402354|gb|EG444946.1|EG444946
EST:     CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAA                         GGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA
genomic: CATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaa ... atttgttcagGGAAAATGCTGGAGATGTGAAGGCAAAGTTTATAGTAGAGGCAGCTAACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCAATGATTTCAATGGTGGAGACGCTATGAATTCAGATGAATTGCTCATTCATGAGTGTGATGTTCTCATTCCATGCGCTCTTGGTGGTGTCCTGAACAAgtcagttcaaaaacttcactcatcaaatcaacaccaatcatagagattcactttctgattcttatatttcccaatatttgttcag

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