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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAAAATATGGTACTTCAGAAGCTGAAAGCAGAAACCAAAGAGCAATACACTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAGgtaccactcaactctactcctactgaaagcctcttaactaattattgtaaatgaggttttaaatatttacttctccatcttatgataaaatcag

Basic information

species Arabidopsis thaliana
transcript AT3G54530.1
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|116435779|gb|EG478371.1|EG478371
EST:     CTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAG                         TTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
genomic: CTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAGgtaccactca ... ataaaatcagTTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
EST: gi|116435774|gb|EG478366.1|EG478366
EST:     CTGATGGTTTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAG                         TTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
genomic: CTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAGgtaccactca ... ataaaatcagTTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
EST: gi|116435775|gb|EG478367.1|EG478367
EST:     CTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAG                         TTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
genomic: CTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAGgtaccactca ... ataaaatcagTTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
EST: gi|116435776|gb|EG478368.1|EG478368
EST:     ATGATGGTTTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAG                         TTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA
genomic: CTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAGgtaccactca ... ataaaatcagTTCATTTGCATTCAAAGAATAGTTCCACAGAATAGCAACAAGAAATCTGTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGAAAATATGGTACTTCAGAAGCTGAAAGCAGAAACCAAAGAGCAATACACTGATGGTCTGTGTCAAGAAACAATTGATGTCAAAAGAATTAATTGGGAGgtaccactcaactctactcctactgaaagcctcttaactaattattgtaaatgaggttttaaatatttacttctccatcttatgataaaatcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA