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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcgccatcactcagtgggtgcatcaacatgaaccctggctgctgagacgtcctcgtcacttataggcattaccatgccccgctatgtgcgctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCTCAGCAGCGCGGGGCGGCAGGGCGGGCTCTGTCGCGAGCCACGCCAGGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98611
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|15373474|gb|BI532900.1|BI532900
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGCCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
EST: gi|8287515|gb|BE025074.1|BE025074
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGCCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
EST: gi|14232547|gb|BG851363.1|BG851363
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGCCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
EST: gi|23366672|gb|BU654491.1|BU654491
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
EST: gi|14227325|gb|BG846141.1|BG846141
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCAGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGCCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
EST: gi|15702079|gb|BI726384.1|BI726384
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGCCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT
EST: gi|23365901|gb|BU653721.1|BU653721
EST:     CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAG                         GCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGCCAGTGTGGCTGGCT
genomic: CGCGGCAGAGCACCACCTGGCAGGCGCTGGAGCGCTGGTCCGGCAACAAGgtaggagcgg ... ctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacgtcctcgtcacttataggcattaccatgccccgctatgtgcgctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCTCAGCAGCGCGGGGCGGCAGGGCGGGCTCTGTCGCGAGCCACGCCAGGAG
            acttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcgccatcactcagtgggtgcatcaacatgaaccctggctgctgagacgtcctcgtcacttataggcattaccatgccccgctatgtgcgctgtttgcagGCTCGCCTCGGGATGCGGAGCCGCCTAAGAAGCCTGTCAGTGTGGCTGGCTCAGCAGCGCGGGGCGGCAGGGCGGGCTCTGTCGCGAGCCACGCCAGGAG

- - - tcactca
- - - - - - -gtgggtg
- - - - - - - - - - -atcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgtgcg