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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttgtagacgggcgcgctggcagcccggaagctgcgctgggggcgtcgctgcacaagggtttggggcctaacttactgcgcgtcgtgccctgcgcctgcgaacgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTTCAACGTCGACTTCGCCGGCCCCAAAGACA

Basic information

species Chlamydomonas reinhardtii
transcript EDP09753
intron # 1
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|22071044|gb|BQ820382.1|BQ820382
EST:     AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCT                         GATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
genomic: AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCTgtgagtttgt ... cgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
EST: gi|10788266|gb|AV644938.1|AV644938
EST:     AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTCATGAAGCT                         GATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
genomic: AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCTgtgagtttgt ... cgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
EST: gi|8400882|gb|BE056516.1|BE056516
EST:     AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCT                         GATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
genomic: AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCTgtgagtttgt ... cgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
EST: gi|49466669|gb|BP094582.1|BP094582
EST:     AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCT                         GATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
genomic: AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCTgtgagtttgt ... cgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
EST: gi|16071742|gb|BI873738.1|BI873738
EST:     AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCT                         GATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
genomic: AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCTgtgagtttgt ... cgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT
EST: gi|15699843|gb|BI724148.1|BI724148
EST:     AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCT                         GATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAANNTCAGCGAGTT
genomic: AACATGTCCGCGTCGCCAAGCAAGCGCCGTGAAATGGACGTGATGAAGCTgtgagtttgt ... cgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtttggggcctaacttactgcgcgtcgtgccctgcgcctgcgaacgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTTCAACGTCGACTTCGCCGGCCCCAAAGACA
            aacttac  putative branch site (score: 2)
           taactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtttgtagacgggcgcgctggcagcccggaagctgcgctgggggcgtcgctgcacaagggtttggggcctaacttactgcgcgtcgtgccctgcgcctgcgaacgttgtgtagGATGATGTCGGATTGGAAGGTGGAGCTGGTGGAAGACAACATCAGCGAGTTCAACGTCGACTTCGCCGGCCCCAAAGACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA