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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aggggcggggatggagtctgtgaaacgctgcgttattccgtatcgccttcagccttactggacatgcctggaaactgccccccccccctcaaacttacagAGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAAGGCCGCCGCCGCCGCCCCCAGCCGCGCCAGCTGGCGCTAAGCAGCCGGCAGCAGCAGCGCCTAGCA

Basic information

species Chlamydomonas reinhardtii
transcript EDP05666
intron # 11
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|23362880|gb|BU650700.1|BU650700
EST:     TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCG                         AGGCCAAGAAGGGCAGCTCCT
genomic: TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCGgtgagggagc ... aaacttacagAGGCCAAGAAGGGCAGCTCCT
EST: gi|10775426|gb|AV632106.1|AV632106
EST:     TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCG                         AGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAANGCCGGCGCCGNCGCCC
genomic: TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCGgtgagggagc ... aaacttacagAGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAAGGCCGCCGCCGCCGCCC
EST: gi|49464046|gb|BP091959.1|BP091959
EST:     TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCG                         AGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAA
genomic: TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCGgtgagggagc ... aaacttacagAGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAA
EST: gi|49458451|gb|BP086364.1|BP086364
EST:     TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCG                         AGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAAGG
genomic: TGGCACCTTCCGCAAGGAGCCCAACTTCAAGTGCGACGACATGATCATCGgtgagggagc ... aaacttacagAGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttcagccttactggacatgcctggaaactgccccccccccctcaaacttacagAGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAAGGCCGCCGCCGCCGCCCCCAGCCGCGCCAGCTGGCGCTAAGCAGCCGGCAGCAGCAGCGCCTAGCA
      gccttac  putative branch site (score: 3)
                             ctgccccccccccctc  putative PPT
                                             aaactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aggggcggggatggagtctgtgaaacgctgcgttattccgtatcgccttcagccttactggacatgcctggaaactgccccccccccctcaaacttacagAGGCCAAGAAGGGCAGCTCCTTCTCCGCGCCCAAGGCCGCCGCCGCCGCCCCCAGCCGCGCCAGCTGGCGCTAAGCAGCCGGCAGCAGCAGCGCCTAGCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - -gtctgtg
- - - - - - - - - - - aaacgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgcc