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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaaacccgtgttccccgcctccttcccctccgctggtttggcttgtttggtttggtttgggctggtattcacaacccccctcttatccgtcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTCATGCTGCAGCAGTTCCAGAACCCCAACAACCCCAAGGTGCACTACGAGA

Basic information

species Chlamydomonas reinhardtii
transcript EDP04425
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|23366664|gb|BU654483.1|BU654483
EST:     TGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGCTAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTT
genomic: TGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATG-AAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTT
EST: gi|23366869|gb|BU654688.1|BU654688
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|9028232|gb|BE238272.1|BE238272
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|10772916|gb|AV623739.1|AV623739
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|6544161|gb|AV389945.1|AV389945
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAAGCCGAGG
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGG
EST: gi|22056000|gb|BQ812146.1|BQ812146
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|14235562|gb|BG854378.1|BG854378
EST:     TGCCTTCGGCGCCGNAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: TGCCTTCGGCGCCG-AGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|14226588|gb|BG845420.1|BG845420
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|14237451|gb|BG856267.1|BG856267
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|14227106|gb|BG845922.1|BG845922
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
EST: gi|14235563|gb|BG854379.1|BG854379
EST:     GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAG                         GGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC
genomic: GTGCCTTCGGCGCCGAGCTGGTGCTGACTGACCCCGCCAAGGGCATGAAGgtgcggcgga ... tcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttggtttggtttgggctggtattcacaacccccctcttatccgtcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTCATGCTGCAGCAGTTCCAGAACCCCAACAACCCCAAGGTGCACTACGAGA
                              cccccctcttatccgt  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaaacccgtgttccccgcctccttcccctccgctggtttggcttgtttggtttggtttgggctggtattcacaacccccctcttatccgtcatgcatagGGCGCCGTGGCCAAGGCCGAGGAGATCCTGGCCTCCACGCCGGACGCCTTCATGCTGCAGCAGTTCCAGAACCCCAACAACCCCAAGGTGCACTACGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG