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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcggtgcagaagcgcatggaatggcatggagcgtgaagcggaagtgaacccactgtgtatttgtgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGAAGCCGTCCCCGGACTTTAAAACGCTCAACAAGATGGCGGTGGCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06263
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|16073106|gb|BI875102.1|BI875102
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
EST: gi|14238083|gb|BG856899.1|BG856899
EST:     GAAAGTCTTCGGTTACACTCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
EST: gi|14236409|gb|BG855225.1|BG855225
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
EST: gi|16432242|gb|BI997468.1|BI997468
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
EST: gi|14237994|gb|BG856810.1|BG856810
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
EST: gi|22072932|gb|BQ822286.1|BQ822286
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGC
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGC
EST: gi|15696155|gb|BI720460.1|BI720460
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA
EST: gi|10128031|gb|BE726607.1|BE726607
EST:     GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAG                         TGATGATGGTGTGGAAGGGGCACAATGCCAGGCCTGGCAAAGACGAGGTGA
genomic: GAAAGTCTTCGGTTACACGCCGGCTAAGGACCCGGAGGGCGCGCGCGAAGgtgcgcggtg ... tgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaatggcatggagcgtgaagcggaagtgaacccactgtgtatttgtgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGAAGCCGTCCCCGGACTTTAAAACGCTCAACAAGATGGCGGTGGCAAG
                                     tgtattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgcggtgcagaagcgcatggaatggcatggagcgtgaagcggaagtgaacccactgtgtatttgtgtgctgcagTGATGATGGTGTGGAAGGGGCACAATGCCAGTCCTGGCAAAGACGAGGTGAAGCCGTCCCCGGACTTTAAAACGCTCAACAAGATGGCGGTGGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG