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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcgcataaggctttaatgcagcattatggctgcgttctgccgcatggggttggtgtacggggtgtacggcgggcgggcgccccagacgcaggccatatgccaggaaagcatgcccgcgcccaacacggtagtgctgcaagcacaatcatataatgccgcacatccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCGGCGGGCGACGTGATCTACATCGAGGCCAACAGCGGTGCCGTGAAGCGCG

Basic information

species Chlamydomonas reinhardtii
transcript EDP00834
intron # 4
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|22058843|gb|BQ813132.1|BQ813132
EST:     TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|161798903|gb|FC084645.1|FC084645
EST:     TGGTCAGTCATGTGGTGATCGGGCTCAAGACAGCCAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|6547112|gb|AV392896.1|AV392896
EST:     TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|161804509|gb|FC088837.1|FC088837
EST:     TGGTCAGTCATGTGGTGATCGGGCTCAAGACAGCCAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|161795055|gb|FC078199.1|FC078199
EST:     TGGTCAGTCATGTGGTGATCGGGCTCAAGACAGCCAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|161810747|gb|FC098512.1|FC098512
EST:     TGGTCAGTCATGTGGTGATCGGGCTCAAGACAGCCAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCNAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|9458853|gb|BE452558.1|BE452558
EST:     TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAGGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
EST: gi|22058844|gb|BQ813133.1|BQ813133
EST:     TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAG                         CTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG
genomic: TGGTCAGTCACGTGGTGATCGGGCTCAAGACAGCTAAGGGCACCAAACAGgtgagcgcat ... atccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcccaacacggtagtgctgcaagcacaatcatataatgccgcacatccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCGGCGGGCGACGTGATCTACATCGAGGCCAACAGCGGTGCCGTGAAGCGCG
                           aatcatataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcgcataaggctttaatgcagcattatggctgcgttctgccgcatggggttggtgtacggggtgtacggcgggcgggcgccccagacgcaggccatatgccaggaaagcatgcccgcgcccaacacggtagtgctgcaagcacaatcatataatgccgcacatccgcgcagCTCAAGCTGGATCCCACCATCTACGACGCGCTCCAAAAGGAGAAGGTGGCGGCGGGCGACGTGATCTACATCGAGGCCAACAGCGGTGCCGTGAAGCGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC