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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtggtgcggtagtgtggggaatacgggcacagcagcacttgccgcgaagcgagagacagacgcagtcaccagtttgcagagcgcgcaaagtac...

Basic information

species Chlamydomonas reinhardtii
transcript EDO98214
intron # 5
splice site 5'
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:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTAGT                         T
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcag-
EST: gi|8828611|gb|BE212341.1|BE212341
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTAGT                         T
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcag-
EST: gi|161797192|gb|FC086850.1|FC086850
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|9210129|gb|BE337044.1|BE337044
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|8513658|gb|BE121553.1|BE121553
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|8287586|gb|BE025145.1|BE025145
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGA
EST: gi|161815720|gb|FC103174.1|FC103174
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|10777244|gb|AV633924.1|AV633924
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|161797645|gb|FC083702.1|FC083702
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|14229744|gb|BG848560.1|BG848560
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|161797229|gb|FC086861.1|FC086861
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGNCA-GGGCATGGACGTTTGTCA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTG-CAAGGGCATGGACGTT-GTCA
EST: gi|22059925|gb|BQ813622.1|BQ813622
EST:     TTCTTCCTGTGCACCGTGGAGACCGTCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGG
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGG
EST: gi|10191227|gb|BE761303.1|BE761303
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|161800933|gb|FC084738.1|FC084738
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGA
EST: gi|14229745|gb|BG848561.1|BG848561
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|161807616|gb|FC094621.1|FC094621
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|15371993|gb|BI531419.1|BI531419
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|9459866|gb|BE452948.1|BE452948
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|10791808|gb|AV629174.1|AV629174
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACG
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACG
EST: gi|161791742|gb|FC078338.1|FC078338
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTTGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
EST: gi|23361835|gb|BU649655.1|BU649655
EST:     TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGT                         GTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA
genomic: TTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtg ... ccttgcgcagGTTCGGCAAGGTCTGCAAGGGCATGGACGTTGTCAAGAAGGTGGAGGGCTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCGGCCCCAACACCAACGGCTCGCAGTTCTTCCTGTGCACCGTGGAGACCGCCTGGCTGGACGGCAAGCACGTCGTgtgagtagtggtgcggtagtgtggggaatacgggcacagcagcacttgccgcgaagcgagagacagacgcagtcaccagtttgcagagcgcgcaaagtac

- - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agcagca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agtttgc