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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcgtggaaccaggaggcgacgctgccacgacgtgggcttgttatcctagctctgccactggcgtactcttggcaagcctttgtgtgctgaccctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTAGTGCAGAGCAAGGGCTTCAAGCGGAGAGACCCCA

Basic information

species Chlamydomonas reinhardtii
transcript EDP05676
intron # 3
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|8828336|gb|BE212066.1|BE212066
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|10780223|gb|AV636903.1|AV636903
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|6541652|gb|AV387436.1|AV387436
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|49458392|gb|BP086305.1|BP086305
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|15696069|gb|BI720374.1|BI720374
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|8514087|gb|BE121982.1|BE121982
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|16432140|gb|BI997366.1|BI997366
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|16438314|gb|BM003534.1|BM003534
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|10779036|gb|AV635716.1|AV635716
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
EST: gi|10126826|gb|BE725530.1|BE725530
EST:     TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAG                         ATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA
genomic: TCCCCGGCAGGACCCCTGAGCTCGTGCTCTACGATGAGAATGGCGTGGAGgtgcgccgcg ... accctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctagctctgccactggcgtactcttggcaagcctttgtgtgctgaccctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTAGTGCAGAGCAAGGGCTTCAAGCGGAGAGACCCCA
                                        tgctgac  putative branch site (score: 2)
                                              ccctcac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcgtggaaccaggaggcgacgctgccacgacgtgggcttgttatcctagctctgccactggcgtactcttggcaagcctttgtgtgctgaccctcacagATTGAGCGTATGTTCGTGGACAAGCTCAAGTACGACGAGCTCCACACGTTAGTGCAGAGCAAGGGCTTCAAGCGGAGAGACCCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgc