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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccctcccaccacctatcctcgcgcaccgcccttcgtcttcacacgcgcctaacccgcagccccctccctccctcccaaccctccctcttacaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAGGGCGGCCCCGTCGAGGATGACGCCTTCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98590
intron # 1
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|10786569|gb|AV643241.1|AV643241
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|10787237|gb|AV643909.1|AV643909
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|10787502|gb|AV644174.1|AV644174
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|49470170|gb|BP098031.1|BP098031
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|6549661|gb|AV395445.1|AV395445
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|6549501|gb|AV395285.1|AV395285
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|49469957|gb|BP097818.1|BP097818
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|10787657|gb|AV644329.1|AV644329
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|10787668|gb|AV644340.1|AV644340
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
EST: gi|10788009|gb|AV644681.1|AV644681
EST:     AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAG                         AGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG
genomic: AGAAGAAGGAGCTGGAGAAGAAGAAGAGCGGCAAGCTTTCGAAGTCGCAGgtgcgaccac ... acaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgcctaacccgcagccccctccctccctcccaaccctccctcttacaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAGGGCGGCCCCGTCGAGGATGACGCCTTCAG
            cagccccctccctccc  CT-rich tract
                                           ttacaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccctcccaccacctatcctcgcgcaccgcccttcgtcttcacacgcgcctaacccgcagccccctccctccctcccaaccctccctcttacaaactcagAGCACGGCCTCGATGCCGCATGCCGACTCCACTGCCTCTCTGGCGTCCAAGGGCGGCCCCGTCGAGGATGACGCCTTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - ccaccac
- - - - - - - - - - cgcgcac
- - - - - - - - - - - - - - - - - - - - cacacgc