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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtcatttatggtgcacgataatgctagccgaatggggttggcgcgtctttgtcagcctgcggttccacaccggacctcgccctgtcgggctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGGGAGGCTTCGGAGAAGCTGCTTGCGGCCGGGCGTTCATTTGACG

Basic information

species Chlamydomonas reinhardtii
transcript EDP05798
intron # 1
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|15691751|gb|BI716056.1|BI716056
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
EST: gi|239841454|gb|GR283311.1|GR283311
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
EST: gi|15696861|gb|BI721166.1|BI721166
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
EST: gi|10127572|gb|BE726276.1|BE726276
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
EST: gi|9460824|gb|BE453429.1|BE453429
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
EST: gi|16433849|gb|BI999075.1|BI999075
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
EST: gi|15692550|gb|BI716855.1|BI716855
EST:     TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAG                         GCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG
genomic: TGCGCCACGGCAAGCGAGAGGACACTATAAATTCGACCTGGCAGGCAAAGgcaagtgcgg ... ctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtctttgtcagcctgcggttccacaccggacctcgccctgtcgggctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGGGAGGCTTCGGAGAAGCTGCTTGCGGCCGGGCGTTCATTTGACG
                                             ctccccgc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtcatttatggtgcacgataatgctagccgaatggggttggcgcgtctttgtcagcctgcggttccacaccggacctcgccctgtcgggctccccgcagGCGCGGTTTCCTTGGGACACCCCCCTGTGCGCTATGGAAGCCGAGATAGGGGAGGCTTCGGAGAAGCTGCTTGCGGCCGGGCGTTCATTTGACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - -tttatgg
- - - - - - - - - - - - - - - - - - - - - - - tctttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacacc