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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTATCGTAAAGATCGTTTGGTTGCCTTCAGAGTACGGCGACGCAGTAGCCTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctttgtgaagaaatctccatgattgttgttctgttttatcttatagagttgttttgtttttggtag

Basic information

species Arabidopsis thaliana
transcript AT1G64350.1
intron # 1
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|86044882|gb|DR340637.1|DR340637
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAMGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|116480252|gb|EG522844.1|EG522844
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044893|gb|DR340648.1|DR340648
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044886|gb|DR340641.1|DR340641
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044884|gb|DR340639.1|DR340639
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044891|gb|DR340646.1|DR340646
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|116457542|gb|EG500134.1|EG500134
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044879|gb|DR340634.1|DR340634
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044883|gb|DR340638.1|DR340638
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044881|gb|DR340636.1|DR340636
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044894|gb|DR340649.1|DR340649
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044887|gb|DR340642.1|DR340642
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044877|gb|DR340632.1|DR340632
EST:     TTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: T-GCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|116430790|gb|EG473382.1|EG473382
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|116430791|gb|EG473383.1|EG473383
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
EST: gi|86044878|gb|DR340633.1|DR340633
EST:     CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAG                         ACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA
genomic: CTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctt ... tttttggtagACGCACATGGTCTTGAATGGAAATTGTGTAAGAGTATGAAGAATAAGTCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AGTATCGTAAAGATCGTTTGGTTGCCTTCAGAGTACGGCGACGCAGTAGCCTGCGTTTGCGAAGACGGGAGCTTATCGATTTGGGAGGAGCTCTCTGAAGgtaacctctttgtgaagaaatctccatgattgttgttctgttttatcttatagagttgttttgtttttggtag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG