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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaatgtccgcacgccccgtgtccgccaccccaaacccgcccaacgcccccaccaccctccaccgccacccaccgacccaccaccgccacccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACATCGACTACGAGTCCGTCATCAAGCTGGCGGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04786
intron # 9
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|161818208|gb|FC101095.1|FC101095
EST:     GGCCGCCTGGACCGCAAGATCGAGATTCCCCTGCCTAACGAGAATGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
genomic: GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
EST: gi|22072893|gb|BQ822247.1|BQ822247
EST:     TGCCCAACGAGAACGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
genomic: TGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
EST: gi|10774917|gb|AV625740.1|AV625740
EST:     GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
genomic: GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
EST: gi|22071306|gb|BQ820644.1|BQ820644
EST:     GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
genomic: GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
EST: gi|161793914|gb|FC079827.1|FC079827
EST:     GGCCGCCTGGACCGCAAGATCGAGATTCCCCTGCCTAACGAGAATGCGCG                         CATGGAGATCCTGAAGAT
genomic: GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGAT
EST: gi|22071307|gb|BQ820645.1|BQ820645
EST:     GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCA
genomic: GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCA
EST: gi|22072894|gb|BQ822248.1|BQ822248
EST:     TGCCCAACGAGAACGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
genomic: TGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
EST: gi|161794482|gb|FC080785.1|FC080785
EST:     GGCCGCCTGGACCGCAAGATCGAGATTCCCCTGCCTAACGAGAATGCGCG                         CATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT
genomic: GGCCGCCTGGACCGCAAGATTGAGATCCCCCTGCCCAACGAGAACGCGCGgtgaggagcg ... ccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcccccaccaccctccaccgccacccaccgacccaccaccgccacccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACATCGACTACGAGTCCGTCATCAAGCTGGCGGAG
                                            cccatcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaatgtccgcacgccccgtgtccgccaccccaaacccgcccaacgcccccaccaccctccaccgccacccaccgacccaccaccgccacccatccacagCATGGAGATCCTGAAGATCCACGCCTCCAAGCTGGCCAAGCACGGCGACATCGACTACGAGTCCGTCATCAAGCTGGCGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - cacgccc
- - - - - - - - - - - - - - ccccaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acccacc