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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtgcacaacttgcgagcacgccacaaccggcgcctgcccccggccaacctgccaactgggggtgtcatgcttcccataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGCATGGTGCTGGGGGAGCAATGCCCCGCTCGGCCCAACAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98535
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|16435221|gb|BM000441.1|BM000441
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|22051690|gb|BQ809786.1|BQ809786
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGTAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATAATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|49466635|gb|BP094548.1|BP094548
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTTCCTGAAGAAAATC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATC
EST: gi|8828636|gb|BE212366.1|BE212366
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|15696441|gb|BI720746.1|BI720746
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|16430082|gb|BI995308.1|BI995308
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|9210776|gb|BE337691.1|BE337691
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|22051689|gb|BQ809785.1|BQ809785
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|10126241|gb|BE724945.1|BE724945
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|15696614|gb|BI720919.1|BI720919
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
EST: gi|15696896|gb|BI721201.1|BI721201
EST:     TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAG                         GAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC
genomic: TTGCGCCAGGGCTGTATCAAGGAGACGAGCTGGACGGCAAGGCCATTCAGgtcagtgcac ... cataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgcctgcccccggccaacctgccaactgggggtgtcatgcttcccataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGCATGGTGCTGGGGGAGCAATGCCCCGCTCGGCCCAACAAG
                                            ccataac  putative branch site (score: 3)
                                      tgcttccc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtgcacaacttgcgagcacgccacaaccggcgcctgcccccggccaacctgccaactgggggtgtcatgcttcccataacacagGAGAAGGATGCCAAGGTAGCGTACCTGAAGAAAATCATCGAGGTGGTCAGCATGGTGCTGGGGGAGCAATGCCCCGCTCGGCCCAACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA