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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caactgcgggcaacctctttcgtgccaccaccaaagagcattgccccctcgcaccgcgtctaaccaccacgacgctccttctacgcaccctctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGACCACACCGTCATGTCCAAGTCGCCCAACAAGCACAACCGCCTGTACATCC

Basic information

species Chlamydomonas reinhardtii
transcript EDO96511
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|49463396|gb|BP091309.1|BP091309
EST:     -TTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|49469170|gb|BP097031.1|BP097031
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCC
EST: gi|10792792|gb|AV630158.1|AV630158
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|10781763|gb|AV638443.1|AV638443
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|49466593|gb|BP094506.1|BP094506
EST:     TTTGCCTGATGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTT
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTT
EST: gi|10772405|gb|AV623228.1|AV623228
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|16071957|gb|BI873953.1|BI873953
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|10790749|gb|AV628115.1|AV628115
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|10768762|gb|AV619587.1|AV619587
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
EST: gi|6551903|gb|AV397687.1|AV397687
EST:     TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAG                         ATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC
genomic: TTTGCCTGAAGGATCTGCAGGACGACTTCATGGGCGGCGCTGAGATCAAGgtgagcgcgt ... tctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctcgcaccgcgtctaaccaccacgacgctccttctacgcaccctctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGACCACACCGTCATGTCCAAGTCGCCCAACAAGCACAACCGCCTGTACATCC
            gtctaac  putative branch site (score: 2)
                                          ccctctgct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caactgcgggcaacctctttcgtgccaccaccaaagagcattgccccctcgcaccgcgtctaaccaccacgacgctccttctacgcaccctctgctgcagATCTCGGAGCCCGTGGTGTCTTTCCGCGAGACCGTGACCGCCCAGTCGGACCACACCGTCATGTCCAAGTCGCCCAACAAGCACAACCGCCTGTACATCC

- - - - - - - - -tttcgtg
- - - - - - - - - - - - - accacca
- - - - - - - - - - - - - - - ccaaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acgcacc