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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cggatgccggttgtgtttctctccatacccgtctgccctgctgcccagccctcacctactgaccatgcccctcgctgcccattcccgctctgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP05829
intron # 8
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|16429904|gb|BI995130.1|BI995130
EST:     CGGCGCTGGCACGTGCTGCGTGCTCTCAG                         GGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
genomic: CGGCGCTGGCACGTGCTGCGTGCTCTCAGgtgcgcactg ... tgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
EST: gi|161790066|gb|FC076845.1|FC076845
EST:     CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAG                         GGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
genomic: CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAGgtgcgcactg ... tgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
EST: gi|161794526|gb|FC081947.1|FC081947
EST:     CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAG                         GGGTCACAAGCGAGGCGCAGCTCCTG
genomic: CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAGgtgcgcactg ... tgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTG
EST: gi|23360206|gb|BU648026.1|BU648026
EST:     CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAG                         GGGTCACAAGCGAGGCGCAGCTTCTGGCCGAGTCCAACAAG
genomic: CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAGgtgcgcactg ... tgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
EST: gi|161790067|gb|FC076846.1|FC076846
EST:     CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAG                         GGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAGG
genomic: CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAGgtgcgcactg ... tgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
EST: gi|161794525|gb|FC081946.1|FC081946
EST:     CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAG                         GGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
genomic: CATCTTGTGGGGCATCCAGAACGGCGCTGGCACGTGCTGCGTGCTCTCAGgtgcgcactg ... tgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagccctcacctactgaccatgcccctcgctgcccattcccgctctgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG
           tactgac  putative branch site (score: 1)
                                cccattcccgctct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cggatgccggttgtgtttctctccatacccgtctgccctgctgcccagccctcacctactgaccatgcccctcgctgcccattcccgctctgcaccccagGGGTCACAAGCGAGGCGCAGCTCCTGGCCGAGTCCAACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTC
- - - - - -tgtgttt
- - - - - - - - - - - -cataccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgccc