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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtgaaatttgtgctagcgggcccccggggctcctccgaactgactctttggcatggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCATGGTCATCGATCTACTGGGCCCCAGCTTGGAGGACCTGTTCAACTTCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP02935
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|6544783|gb|AV390567.1|AV390567
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|23361616|gb|BU649436.1|BU649436
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|23367128|gb|BU654947.1|BU654947
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|10126248|gb|BE724952.1|BE724952
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|49464789|gb|BP092702.1|BP092702
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGTGGAG                         TCGGCATCCCCAATGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|22054960|gb|BQ811634.1|BQ811634
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|22069603|gb|BQ819158.1|BQ819158
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|22055665|gb|BQ811958.1|BQ811958
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|14225404|gb|BG844220.1|BG844220
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|49470052|gb|BP097913.1|BP097913
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGG
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGG
EST: gi|22072275|gb|BQ821613.1|BQ821613
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTC
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTC
EST: gi|10777632|gb|AV634312.1|AV634312
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|10791971|gb|AV629337.1|AV629337
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|22066750|gb|BQ817115.1|BQ817115
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|161794970|gb|FC081143.1|FC081143
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
EST: gi|22070728|gb|BQ820066.1|BQ820066
EST:     CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAG                         TCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA
genomic: CGCGCAGCTGCTGTACGAGTCGAAGCTGTACAAGATTCTGCAGGGCGGAGgtgggtgaaa ... tggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgctagcgggcccccggggctcctccgaactgactctttggcatggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCATGGTCATCGATCTACTGGGCCCCAGCTTGGAGGACCTGTTCAACTTCTG
                             aactgac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtgaaatttgtgctagcgggcccccggggctcctccgaactgactctttggcatggcgcgcagTCGGCATCCCCAACGTGAGGTGGTATGGCGTGGAGGGCGACTACAACGTCATGGTCATCGATCTACTGGGCCCCAGCTTGGAGGACCTGTTCAACTTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA