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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtgcgggctgccgaggctgtcgctggtgcgtggcagaactctgctggtttgcggatccagggtacttcgcgtgctttgtcagcatgtgccagtcagcagttgggggtgcgatcctacttgtgtacctgtaacaagcacgctccggtttggccatctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCCTCCATGCTGGCGCGCACCAACGGCCGCGACGCCATCGTGCGCGGGGACC

Basic information

species Chlamydomonas reinhardtii
transcript EDP00834
intron # 9
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|22072715|gb|BQ822053.1|BQ822053
EST:     AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAG                         GTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
genomic: AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAGgtgggtgcgg ... atctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
EST: gi|22061476|gb|BQ814273.1|BQ814273
EST:     AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAG                         GTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
genomic: AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAGgtgggtgcgg ... atctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
EST: gi|22070084|gb|BQ819514.1|BQ819514
EST:     AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAG                         GTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
genomic: AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAGgtgggtgcgg ... atctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
EST: gi|9458851|gb|BE452557.1|BE452557
EST:     AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAG                         GTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC
genomic: AGGTGGAGGGCATTGGCATCGACGAGGAGTCGCTGGCGTTCCTGGGCGAGgtgggtgcgg ... atctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgatcctacttgtgtacctgtaacaagcacgctccggtttggccatctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCCTCCATGCTGGCGCGCACCAACGGCCGCGACGCCATCGTGCGCGGGGACC
                  ctgtaac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggtgcgggctgccgaggctgtcgctggtgcgtggcagaactctgctggtttgcggatccagggtacttcgcgtgctttgtcagcatgtgccagtcagcagttgggggtgcgatcctacttgtgtacctgtaacaagcacgctccggtttggccatctgcgcagGTGGGCGAGCGCACATCGCTGCGCCACGCGGTGCAGCTGCTAACGCCGGCCTCCATGCTGGCGCGCACCAACGGCCGCGACGCCATCGTGCGCGGGGACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG