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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgcactccgcaagtgctgcactaatgttgtaaaattatggcgcccagcagcccgagactaacctgcctgccttgccggcgctcgtactcccgcgcctcagCTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGCTGAACCTGTTCCTGGCCATCACCATTTTCTCCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP02266
intron # 3
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|10785975|gb|AV642647.1|AV642647
EST:     CCGCACCGCCGTCGAGGCGCGCAAGGGCATTGCCCCTGCCTTCATGTGCG                         CTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGC
genomic: CCGCACCGCCGTCGAGGCGCGCAAGGGCATTGCCCCTGCCTTCATGTGCGgtgagtggta ... cgcgcctcagCTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGC
EST: gi|10785969|gb|AV642641.1|AV642641
EST:     CCGCACCGCCGTCGAGGCGCGCAAGGGCATTGCCCCTGCCTTCATGTGCG                         CTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGC
genomic: CCGCACCGCCGTCGAGGCGCGCAAGGGCATTGCCCCTGCCTTCATGTGCGgtgagtggta ... cgcgcctcagCTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGC
EST: gi|16071358|gb|BI873354.1|BI873354
EST:     CCGCACCGCCGTCGAGGCGCGCAAGGGCATTGCCCCTGCCTTCATGTGCG                         CTNTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGC
genomic: CCGCACCGCCGTCGAGGCGCGCAAGGGCATTGCCCCTGCCTTCATGTGCGgtgagtggta ... cgcgcctcagCTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcagcccgagactaacctgcctgccttgccggcgctcgtactcccgcgcctcagCTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGCTGAACCTGTTCCTGGCCATCACCATTTTCTCCAAG
          gactaac  putative branch site (score: 1)
                                       tactccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgcactccgcaagtgctgcactaatgttgtaaaattatggcgcccagcagcccgagactaacctgcctgccttgccggcgctcgtactcccgcgcctcagCTTTCCGCTCGGGCGCCGTGATGGGCTTCCTGCTGTCGGGCTTCGGCCTGCTGAACCTGTTCCTGGCCATCACCATTTTCTCCAAG

- - - - - - - - - cactaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - agactaa