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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtgcgcgcgcgcgtgcccataccgctatgtctccaggcgcgcatggcaaacccagttacccggctcttggcaaccttatgctgaagtggctgggatggaaaagatacgcgggttcctaacggttgctgtgtcccttgcggcggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCGCCCGACCTGGAGCTGCCCCTGCAGAGCCTGGGCCAGGCCAACACGCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04518
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|161808713|gb|FC094093.1|FC094093
EST:     GCCAGACGCTGGATCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|9460414|gb|BE453219.1|BE453219
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|15694167|gb|BI718472.1|BI718472
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|22067685|gb|BQ817747.1|BQ817747
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|22060738|gb|BQ813886.1|BQ813886
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|22060737|gb|BQ813885.1|BQ813885
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|23358263|gb|BU646083.1|BU646083
EST:     ACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: ACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|22067686|gb|BQ817748.1|BQ817748
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
EST: gi|23363980|gb|BU651800.1|BU651800
EST:     GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAG                         GACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG
genomic: GCCAGACGCTGGACCTGGCCCCGCTGCGCGATGCCGTCAAGCCGCTGCAGgtccgtgcgc ... cggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaaaagatacgcgggttcctaacggttgctgtgtcccttgcggcggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCGCCCGACCTGGAGCTGCCCCTGCAGAGCCTGGGCCAGGCCAACACGCAG
                  tcctaac  putative branch site (score: 1)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccgtgcgcgcgcgcgtgcccataccgctatgtctccaggcgcgcatggcaaacccagttacccggctcttggcaaccttatgctgaagtggctgggatggaaaagatacgcgggttcctaacggttgctgtgtcccttgcggcggtgcgcagGACGCCACCAAGGGCCTGGCGGCCTCCGCCTCCGACCTGCTGGGCCAGGCGCCCGACCTGGAGCTGCCCCTGCAGAGCCTGGGCCAGGCCAACACGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG