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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccccacacacacgtacacaaatccgcacggcgccgaccctctccccttgtgcctttccaacacacgtacaaacccacccacccgcctgcccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATCGTCACCACCATGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP05906
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|9027735|gb|BE237775.1|BE237775
EST:     AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
EST: gi|49470466|gb|BP098327.1|BP098327
EST:     AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTAC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTAC
EST: gi|15692965|gb|BI717270.1|BI717270
EST:     AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
EST: gi|14238276|gb|BG857092.1|BG857092
EST:     AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
EST: gi|6546010|gb|AV391794.1|AV391794
EST:     AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
EST: gi|14235843|gb|BG854659.1|BG854659
EST:     AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
EST: gi|8932751|gb|BE227512.1|BE227512
EST:     AGGCCGAGGCGATCACCGTCGCATCCGTGTCCGGCATCGGCGCTGGAGCG                         CTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC
genomic: AGGCCGAGGCGATCACCGCCGCATCCGTGTCCGGCATCGGCGCTGGAGCGgtgagacgtg ... ccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccttgtgcctttccaacacacgtacaaacccacccacccgcctgcccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATCGTCACCACCATGG
                                        cctgccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cccccacacacacgtacacaaatccgcacggcgccgaccctctccccttgtgcctttccaacacacgtacaaacccacccacccgcctgcccgcccgcagCTCCAGACGCTGACCGACCCCATCCTGGCCTACACCTACCAGTACCCCATCGTCACCACCATGG

- - -acacaca
- - - -acacacg
- - - - - - - -acacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacccgc