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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gacatgtgcggctcaggtgcagagctttgtatatcgttgtacttaattgtgttatgtcctgccattctatttttccctaacgcggctgtgcggccctcagGACCGGGGACGGCGAAGTGCACGACGTGACTCCGGGTGTTGACACGGGTTTCAACGTACGCACCACCGTGCACGAGTACGGCGGCGGCGAGTACACACTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06530
intron # 2
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|6549881|gb|AV395665.1|AV395665
EST:     TGGCTGGAGGGGCGGCCGGAGGAGGGCGGGCGGCAGGTGCTGGTGATCAG                         GACCGGGGACGGCGAAGAGCACGACGTGACTCCGGGTGT
genomic: TGGCTGGAGGGGCGGCCGGAGGAGGGCGGGCGGCAGGTGCTGGTGATCAGgtgggtgcgg ... cggccctcagGACCGGGGACGGCGAAGTGCACGACGTGACTCCGGGTGT
EST: gi|10784299|gb|AV640971.1|AV640971
EST:     TGGCTGGAGGGGCGGCCGGAGGAGGGCGGCCGGCAAGTGCTGGTGATCAA                         GACCGGGGACGGCGAAGTGCACGACGTGAC
genomic: TGGCTGGAGGGGCGGCCGGAGGAGGGCGGGCGGCAGGTGCTGGTGATCAGgtgggtgcgg ... cggccctcagGACCGGGGACGGCGAAGTGCACGACGTGAC
EST: gi|10788883|gb|AV626603.1|AV626603
EST:     TGGCTGGAGGGGCGGCCGGAGGAGGGCGGGCGGCAGGTGCTGGTGATCAG                         GACCGGGGACGGCGAAGTGCACGACGTGACTCCGGGTGTTGACACGGGTTT
genomic: TGGCTGGAGGGGCGGCCGGAGGAGGGCGGGCGGCAGGTGCTGGTGATCAGgtgggtgcgg ... cggccctcagGACCGGGGACGGCGAAGTGCACGACGTGACTCCGGGTGTTGACACGGGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtgttatgtcctgccattctatttttccctaacgcggctgtgcggccctcagGACCGGGGACGGCGAAGTGCACGACGTGACTCCGGGTGTTGACACGGGTTTCAACGTACGCACCACCGTGCACGAGTACGGCGGCGGCGAGTACACACTG
                             ccctaac  putative branch site (score: 2)
                                                ccctc  putative PPT
                  attctattttt  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gacatgtgcggctcaggtgcagagctttgtatatcgttgtacttaattgtgttatgtcctgccattctatttttccctaacgcggctgtgcggccctcagGACCGGGGACGGCGAAGTGCACGACGTGACTCCGGGTGTTGACACGGGTTTCAACGTACGCACCACCGTGCACGAGTACGGCGGCGGCGAGTACACACTG

-acatgtg
- - - - - - - - - - - - -tttgtat
- - - - - - - - - - - - - - - - - - -tgtactt
- - - - - - - - - - - - - - - - - - - - - - - -tgtgtta