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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtttgggtcttaactttttcaagttaaacaaatttgactttgtttttagaccaagtagtcaaataagttgtgataagtttatttttccgggttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAATCAGACTAGAGTTAAAAGAGATAATCAATAAAGCACGCACAACTTTCACA

Basic information

species Arabidopsis thaliana
transcript AT5G14030.3
intron # 6
splice site 3'
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|116459815|gb|EG502407.1|EG502407
EST:     GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAG                         TGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
genomic: GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAGgttggtacgg ... gttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
EST: gi|116459826|gb|EG502418.1|EG502418
EST:     GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAG---------                         --C---TTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
genomic: GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAGgttggtacgg ... gttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
EST: gi|116459820|gb|EG502412.1|EG502412
EST:     GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAG-TG------                         --CAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
genomic: GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAGgttggtacgg ... gttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
EST: gi|116459814|gb|EG502406.1|EG502406
EST:     GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAG                         TGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
genomic: GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAGgttggtacgg ... gttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
EST: gi|116459825|gb|EG502417.1|EG502417
EST:     GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAG---------                         --C---TTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT
genomic: GGCAAGCAGCAAGAAGAAGCGTTAAGTTAGTGAAATGAAAGGTGAGAAAGgttggtacgg ... gttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagaccaagtagtcaaataagttgtgataagtttatttttccgggttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAATCAGACTAGAGTTAAAAGAGATAATCAATAAAGCACGCACAACTTTCACA
                         tgataagtttattttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgggtcttaactttttcaagttaaacaaatttgactttgtttttagaccaagtagtcaaataagttgtgataagtttatttttccgggttggaatagTGCAGCTTTTGCCATGTTTATCAAGAGTTCAAGACGGGATTATACAACAATCAGACTAGAGTTAAAAGAGATAATCAATAAAGCACGCACAACTTTCACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - -agaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaataa