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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacacacattccagacacatgcaaatcgattgcctctgtttcttgttggcggctggtcggtaacctgagtgtgtgtggtgccccaaatcctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCCAACGCATTTGAGATCAGCACACAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO99100
intron # 3
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|161793755|gb|FC079096.1|FC079096
EST:     TCAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGAC                         GTGAACAAGTGCCTCTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
genomic: TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGACgtgagtggcg ... ctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
EST: gi|22076884|gb|BQ825660.1|BQ825660
EST:     TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGAC                         GTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
genomic: TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGACgtgagtggcg ... ctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
EST: gi|161808421|gb|FC096713.1|FC096713
EST:     TCAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGAC                         GTGAACAAGTGCCTCTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
genomic: TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGACgtgagtggcg ... ctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
EST: gi|15373582|gb|BI533008.1|BI533008
EST:     TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGAC                         GTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
genomic: TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGACgtgagtggcg ... ctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
EST: gi|22063917|gb|BQ815502.1|BQ815502
EST:     TAAGAGCGATGTTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGAC                         GTGAACAAGTGCCTG
genomic: TAAGAGCGATGTT-GTGACGCCGGACTCGGTCCCACGCGGTGTTATCGACgtgagtggcg ... ctgccgacagGTGAACAAGTGCCTG
EST: gi|16431663|gb|BI996889.1|BI996889
EST:     TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGAC                         GTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC
genomic: TTAAGAGCGATGTTGTGACGCCGGACTCGGTCCCACGCGGTGTTATCGACgtgagtggcg ... ctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttggcggctggtcggtaacctgagtgtgtgtggtgccccaaatcctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCCAACGCATTTGAGATCAGCACACAG
             cggtaac  putative branch site (score: 3)
                                           tcctgcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atacacacattccagacacatgcaaatcgattgcctctgtttcttgttggcggctggtcggtaacctgagtgtgtgtggtgccccaaatcctgccgacagGTGAACAAGTGCCTGTCCATCAAGGGCGCAGAGGACACAATCAACAAGGCCAACGCATTTGAGATCAGCACACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- acacaca
- - - - - - -agacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccccaaa