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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgacggctggtcaactgttgatggatgcatcacaggtcattcaccactgactagccccggccccgcacccgaacccgcacactcttgctcgctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCCTCGGGCGTGCTCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP05906
intron # 4
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|9027735|gb|BE237775.1|BE237775
EST:     GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAG                         GTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
genomic: GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAGgtgggcagcg ... gctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
EST: gi|15692965|gb|BI717270.1|BI717270
EST:     GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAG                         GTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
genomic: GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAGgtgggcagcg ... gctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
EST: gi|14238276|gb|BG857092.1|BG857092
EST:     GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAG                         GTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
genomic: GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAGgtgggcagcg ... gctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
EST: gi|6546010|gb|AV391794.1|AV391794
EST:     GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAC                         GTGTTTGACTTCA-GAACTT-GTGACGGC-TCCATGA-TGTGG-CCCGGC-
genomic: GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAGgtgggcagcg ... gctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
EST: gi|14235843|gb|BG854659.1|BG854659
EST:     GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAG                         GTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC
genomic: GCAGCGCGGCGCCACTCACCGCGGACGCCCGCCAGCGCATCGTCAGCGAGgtgggcagcg ... gctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgactagccccggccccgcacccgaacccgcacactcttgctcgctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCCTCGGGCGTGCTCAAG
 cactgac  putative branch site (score: 2)
                                    ctcttgctcgctctc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgacggctggtcaactgttgatggatgcatcacaggtcattcaccactgactagccccggccccgcacccgaacccgcacactcttgctcgctctcgcagGTGTTTGACTTCAAGAACTTTGTGACGGCCTCCATGACTGTGGGCCCCGCCTCGGGCGTGCTCAAG

- - - - - - - - - - atggatg
- - - - - - - - - - - - - -catcaca
- - - - - - - - - - - - - - - - - - tcattca
- - - - - - - - - - - - - - - - - - - - - - -actgact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acccgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccgcaca