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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacagcttgagctgtgacaggctccataaattccttgcgaggaagtccattgcgctcacctccccgctcccgccccgacaattctcgctccctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGACAGGGGGGCGGGGCTCAGCCCCGTCGGCTCGATCGGCTCGCCTGGTGGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO96606
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|15703523|gb|BI727828.1|BI727828
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|22071732|gb|BQ821070.1|BQ821070
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|15696879|gb|BI721184.1|BI721184
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|15693063|gb|BI717368.1|BI717368
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|9210419|gb|BE337334.1|BE337334
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|23362385|gb|BU650205.1|BU650205
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|16432198|gb|BI997424.1|BI997424
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|10776392|gb|AV633072.1|AV633072
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|10126522|gb|BE725226.1|BE725226
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|15698171|gb|BI722476.1|BI722476
EST:     CGGAACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: CGGAACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|15694256|gb|BI718561.1|BI718561
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|10128238|gb|BE726942.1|BE726942
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|14231278|gb|BG850094.1|BG850094
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|16428820|gb|BI994046.1|BI994046
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|23360990|gb|BU648810.1|BU648810
EST:     CGGAACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: CGGAACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|15696115|gb|BI720420.1|BI720420
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
EST: gi|14231284|gb|BG850100.1|BG850100
EST:     ACCGCCCCGGAAGCATGACGAAGCCTGCAAG                         GTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA
genomic: ACCGCCCCGGAAGCATGACGAAGCCTGCAAGgtgagcaggc ... cctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccattgcgctcacctccccgctcccgccccgacaattctcgctccctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGACAGGGGGGCGGGGCTCAGCCCCGTCGGCTCGATCGGCTCGCCTGGTGGC
       cgctcac  putative branch site (score: 3)
                                    ttctcgctccctccct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacagcttgagctgtgacaggctccataaattccttgcgaggaagtccattgcgctcacctccccgctcccgccccgacaattctcgctccctccctcagGTCGTCTATTGACGCTATCCGCCAGGGCAGTATGCCCCGAGGCAGTCTAGACAGGGGGGCGGGGCTCAGCCCCGTCGGCTCGATCGGCTCGCCTGGTGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
cacagct
- - - - - - - - acaggct
- - - - - - - - - - - -ccataaa