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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacccgctgctggcgtcgactgggttgcatgggcctgaacaactcggcgcacctgctgaccaccgccacttgcacacgcccacaccattcacccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGACCCTGTACGACGTGTTCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04078
intron # 10
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|16436290|gb|BM001510.1|BM001510
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
EST: gi|15703791|gb|BI728096.1|BI728096
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
EST: gi|15692909|gb|BI717214.1|BI717214
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCC
EST: gi|22067396|gb|BQ817528.1|BQ817528
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
EST: gi|8287566|gb|BE025125.1|BE025125
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
EST: gi|49459889|gb|BP087802.1|BP087802
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
EST: gi|22063723|gb|BQ815383.1|BQ815383
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
EST: gi|22071124|gb|BQ820462.1|BQ820462
EST:     CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAG                         CTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC
genomic: CTGGTGGCCGCAGTGTACTACCGCAGCCAGGACCTGTACATGTTCGACAGgtgggcggcg ... acccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcgcacctgctgaccaccgccacttgcacacgcccacaccattcacccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGACCCTGTACGACGTGTTCAAG
        tgctgac  putative branch site (score: 2)
                                          ttcaccccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacccgctgctggcgtcgactgggttgcatgggcctgaacaactcggcgcacctgctgaccaccgccacttgcacacgcccacaccattcacccccgcagCTTCCAGACGTCGCAGCCCATGCAGAACCCCCGGCGGCCGTCCTGCAAGACCCTGTACGACGTGTTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
cacccgc
- - - - - - - - - - - - ttgcatg
- - - - - - - - - - - - - - - - - - - - - - - - -cacctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaccat