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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gagccttttgcggtgcccctccaacgtacctggggtatactttgcttccctcactgacgcaaacccctctcccctactgtttgtgtctgctcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGGCGCGCACGCAGGAGGCTTTCGAGCCCGTGTACAGCGACGGCGCCGCCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97224
intron # 7
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|10774790|gb|AV625613.1|AV625613
EST:     GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAG                         GCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
genomic: GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
EST: gi|10778595|gb|AV635275.1|AV635275
EST:     GACCATCTGCAACATGGTGGTGGAGGCGGGAG                         GCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
genomic: GACCATCTGCAACATGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
EST: gi|14224974|gb|BG843790.1|BG843790
EST:     GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAG                         GCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
genomic: GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
EST: gi|49464141|gb|BP092054.1|BP092054
EST:     ACNATG-ACGAGCGCATGACCATCTGCAACAATGGTGGTGGAGGCGGGAG                         GCAAGAACCGG-GTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAG
genomic: AC-ATGGACGAGCGCATGACCATCTGCAACA-TGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAAC-GGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAG
EST: gi|16431497|gb|BI996723.1|BI996723
EST:     GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAG                         GCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
genomic: GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
EST: gi|6542420|gb|AV388204.1|AV388204
EST:     GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAG                         GCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
genomic: GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
EST: gi|10792828|gb|AV630194.1|AV630194
EST:     GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAG                         GCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG
genomic: GAACATGGACGAGCGCATGACCATCTGCAACATGGTGGTGGAGGCGGGAGgtgagaggcg ... tcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccctcactgacgcaaacccctctcccctactgtttgtgtctgctcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGGCGCGCACGCAGGAGGCTTTCGAGCCCGTGTACAGCGACGGCGCCGCCAG
      cactgac  putative branch site (score: 2)
                  cccctctcccctactg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gagccttttgcggtgcccctccaacgtacctggggtatactttgcttccctcactgacgcaaacccctctcccctactgtttgtgtctgctcccccccagGCAAGAACGGCGTGATCGCGCCTGACCAGACCACCTTCGACTACGTCAAGGCGCGCACGCAGGAGGCTTTCGAGCCCGTGTACAGCGACGGCGCCGCCAG

- - -ttttgcg
- - - - - - - - - - - aacgtac
- - - - - - - - - - - - - - - - - - - - tttgctt
- - - - - - - - - - - - - - - - - - - - - - - - cctcact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - acgcaaa