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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgttctgggtcgggcgctcggaggctagcgagctcgacacgccatctgttttccttgggcgaacgttccttccacgtgtcctcctttctgtcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCCATGGAGATTATTGACCGGCGCGTCACCAAGATGAAGATGATCTCCCCCT

Basic information

species Chlamydomonas reinhardtii
transcript EDP09986
intron # 1
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|10790921|gb|AV628287.1|AV628287
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|14233276|gb|BG852092.1|BG852092
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|15370253|gb|BI529679.1|BI529679
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|23363853|gb|BU651673.1|BU651673
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|10790271|gb|AV627637.1|AV627637
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|14240730|gb|BG859546.1|BG859546
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|14225055|gb|BG843871.1|BG843871
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|15370074|gb|BI529500.1|BI529500
EST:     GGGTGGTGNTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGATGAGGAGTTCGACCTGCCC
genomic: GGGTGGTG-TGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|14234329|gb|BG853145.1|BG853145
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|49467461|gb|BP095374.1|BP095374
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|16073282|gb|BI875278.1|BI875278
EST:     AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: AGGGTGGTGTGGAGACCTTCCTGCTGGAGCGCAAGCTGGACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
EST: gi|10772753|gb|AV623576.1|AV623576
EST:     ACAACTGCAAG                         CCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC
genomic: ACAACTGCAAGgtgcgcatga ... tcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttttccttgggcgaacgttccttccacgtgtcctcctttctgtcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCCATGGAGATTATTGACCGGCGCGTCACCAAGATGAAGATGATCTCCCCCT
                    ttccttccacgtgtcc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgttctgggtcgggcgctcggaggctagcgagctcgacacgccatctgttttccttgggcgaacgttccttccacgtgtcctcctttctgtcgctcgcagCCCTGCGGTGGTGCCATCCCTCTGTGCATGGTTGAGGAGTTCGACCTGCCCATGGAGATTATTGACCGGCGCGTCACCAAGATGAAGATGATCTCCCCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - acacgcc
- - - - - - - - - - - - - - - - - - - - - - tctgttt