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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttatgcaacccatcggtatcatcgttgacttctgaagacttagtggtctaaaccccacatctaaaccccgacacctgcccacaacctgacccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCACCCGCGGCGCGCGGATTGGCCGCCGCAGGATGCGGGCACGAGGTGCTTC

Basic information

species Chlamydomonas reinhardtii
transcript EDP04425
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|14226587|gb|BG845419.1|BG845419
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
EST: gi|23366823|gb|BU654642.1|BU654642
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
EST: gi|23366663|gb|BU654482.1|BU654482
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
EST: gi|22070938|gb|BQ820276.1|BQ820276
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
EST: gi|14237450|gb|BG856266.1|BG856266
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAAATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGGGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
EST: gi|9028231|gb|BE238271.1|BE238271
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAAATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
EST: gi|7615327|gb|AW720774.1|AW720774
EST:     CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAG                         CCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA
genomic: CGGTGCTGTTCCAGCAGCTGCGCGACGAGGCGTCCAAGATGACCTTCGAGgtgggtgggt ... cccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtctaaaccccacatctaaaccccgacacctgcccacaacctgacccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCACCCGCGGCGCGCGGATTGGCCGCCGCAGGATGCGGGCACGAGGTGCTTC
                                       acctgac  putative branch site (score: 3)
                                             cccctcgc  CT-rich tract
              atctaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttatgcaacccatcggtatcatcgttgacttctgaagacttagtggtctaaaccccacatctaaaccccgacacctgcccacaacctgacccctcgcagCCCTCCGCCTGAAGCGGGACGCGGACGCAACTGGACGACAGCAGCAGCGCACCCGCGGCGCGCGGATTGGCCGCCGCAGGATGCGGGCACGAGGTGCTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG