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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctcctctctccctatcctaccccttccgtctgtgtttcccggtgctgccctcgcgcccgcgcctcacacccgtgcctgccaccctgtccacttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCCCGATTATGTGGATGACAAATTCTGCCATAAGAACCGCTACCGCAA

Basic information

species Chlamydomonas reinhardtii
transcript EDP06382
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|15700143|gb|BI724448.1|BI724448
EST:     GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGA                         TTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
genomic: GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGAgtaagcatgc ... cttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
EST: gi|14240975|gb|BG859791.1|BG859791
EST:     GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGA                         TTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
genomic: GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGAgtaagcatgc ... cttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
EST: gi|16438217|gb|BM003437.1|BM003437
EST:     GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGA                         TTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
genomic: GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGAgtaagcatgc ... cttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
EST: gi|9461077|gb|BE453553.1|BE453553
EST:     GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGA                         TTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
genomic: GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGAgtaagcatgc ... cttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
EST: gi|16430767|gb|BI995993.1|BI995993
EST:     GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGA                         TTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
genomic: GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGAgtaagcatgc ... cttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
EST: gi|15694570|gb|BI718875.1|BI718875
EST:     GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGA                         TTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC
genomic: GAGTGGGACGACGACAGTGACGACGAGGAACTGGGCATGTCCGACGTCGAgtaagcatgc ... cttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccctcgcgcccgcgcctcacacccgtgcctgccaccctgtccacttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCCCGATTATGTGGATGACAAATTCTGCCATAAGAACCGCTACCGCAA
               gcctcac  putative branch site (score: 3)
                                    ccctgtccacttcctt  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctcctctctccctatcctaccccttccgtctgtgtttcccggtgctgccctcgcgcccgcgcctcacacccgtgcctgccaccctgtccacttccttcagTTTCCTGATGCTGGGCATCAGCAAGAAGGGCACTGACCCCGAGGACGACCCCGATTATGTGGATGACAAATTCTGCCATAAGAACCGCTACCGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - tgtgttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacaccc