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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgtgccgcgcggcctcgactactccagatgatggctgccgcacctgcacgaccaacactggctggcacctatgtcgctgtgctgttcgtcgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT

Basic information

species Chlamydomonas reinhardtii
transcript EDO98214
intron # 4
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|8828611|gb|BE212341.1|BE212341
EST:     AGAACTTCAAGCACCGTCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161797192|gb|FC086850.1|FC086850
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|9210129|gb|BE337044.1|BE337044
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|8513658|gb|BE121553.1|BE121553
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|8287586|gb|BE025145.1|BE025145
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161815720|gb|FC103174.1|FC103174
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|10777244|gb|AV633924.1|AV633924
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161797645|gb|FC083702.1|FC083702
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|14229744|gb|BG848560.1|BG848560
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161797229|gb|FC086861.1|FC086861
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|22059925|gb|BQ813622.1|BQ813622
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|10191227|gb|BE761303.1|BE761303
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161800933|gb|FC084738.1|FC084738
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|14229745|gb|BG848561.1|BG848561
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161807616|gb|FC094621.1|FC094621
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|15371993|gb|BI531419.1|BI531419
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|9459866|gb|BE452948.1|BE452948
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|10791808|gb|AV629174.1|AV629174
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|161791742|gb|FC078338.1|FC078338
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
EST: gi|23361835|gb|BU649655.1|BU649655
EST:     AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAAC                         GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC
genomic: AGAACTTCAAGCACCGCCACACCGGCCCCGGCGTGCTGTCCATGGCCAACgtgagtgggg ... cgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcacgaccaacactggctggcacctatgtcgctgtgctgttcgtcgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT
                                            tcgctct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgtgccgcgcggcctcgactactccagatgatggctgccgcacctgcacgaccaacactggctggcacctatgtcgctgtgctgttcgtcgctctgcagGCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - acctgca
- - - - - - - - - - - - - - - - - - - - - - - - - -accaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttcgt