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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttctggcccatccttcagctcccaggaatccacattcacgtgagaaacttggctttcctccgacctttgcttttgccctctacctcctctccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTGGCCTCTGCCCCCGCCGCCTCGGGCTCTGCCTCTGACCCCCTGATGCTGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98596
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|14234526|gb|BG853342.1|BG853342
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCTCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|10777184|gb|AV633864.1|AV633864
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|10787211|gb|AV643883.1|AV643883
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|49465304|gb|BP093217.1|BP093217
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|10785780|gb|AV642452.1|AV642452
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|161799638|gb|FC083859.1|FC083859
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|10790731|gb|AV628097.1|AV628097
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|49466809|gb|BP094722.1|BP094722
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGTGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|49462355|gb|BP090268.1|BP090268
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|6547384|gb|AV393168.1|AV393168
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|22069992|gb|BQ819452.1|BQ819452
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCTCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|49463383|gb|BP091296.1|BP091296
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG
EST: gi|15369674|gb|BI529100.1|BI529100
EST:     AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAG                         GCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCTCCCGCCGTG
genomic: AGACCAAGGCTTTCACCTCTGCGCGCCCCCAGCGGGCCGCTGCGCTCAAGgtctgtggga ... ccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttggctttcctccgacctttgcttttgccctctacctcctctccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTGGCCTCTGCCCCCGCCGCCTCGGGCTCTGCCTCTGACCCCCTGATGCTGC
       ctttcctccgaccttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttctggcccatccttcagctcccaggaatccacattcacgtgagaaacttggctttcctccgacctttgcttttgccctctacctcctctccttgctcagGCGCAGCGCACCTCGTCGGTGACCGTGCGCGCGACCGCGGCCCCCGCCGTGGCCTCTGCCCCCGCCGCCTCGGGCTCTGCCTCTGACCCCCTGATGCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - -atccaca
- - - - - - - - - - - - - - - - - - - - - agaaact