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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgatgcagtgcaagcgcgttgtctgtgccgccgcgcttcgaggactgttgtttcatttgcatgccaaaaacacacgcgcgcacccgcgaggcccccgaccctgcgcacgttggctgcagcccgtgccttaccccttccgctcctgctcctgttcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAGAAGAAGGGTTTCTACACCTCAGATTTTTCCAAGCGTGATGAGTTCACCA

Basic information

species Chlamydomonas reinhardtii
transcript EDP06355
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|15697434|gb|BI721739.1|BI721739
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|22070742|gb|BQ820080.1|BQ820080
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161794267|gb|FC081649.1|FC081649
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|9028321|gb|BE238361.1|BE238361
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|14240466|gb|BG859282.1|BG859282
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|14242094|gb|BG860910.1|BG860910
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|8401094|gb|BE056728.1|BE056728
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|14242021|gb|BG860837.1|BG860837
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161807964|gb|FC097569.1|FC097569
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|22066689|gb|BQ817082.1|BQ817082
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161818114|gb|FC102275.1|FC102275
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161802719|gb|FC089137.1|FC089137
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|22070741|gb|BQ820079.1|BQ820079
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161811408|gb|FC097990.1|FC097990
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|23366648|gb|BU654467.1|BU654467
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|15702963|gb|BI727268.1|BI727268
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|16435561|gb|BM000781.1|BM000781
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|16072799|gb|BI874795.1|BI874795
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|8287317|gb|BE024876.1|BE024876
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161803940|gb|FC093855.1|FC093855
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161810920|gb|FC099673.1|FC099673
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161817918|gb|FC103613.1|FC103613
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161796564|gb|FC082894.1|FC082894
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|15372350|gb|BI531776.1|BI531776
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161823303|gb|FC110110.1|FC110110
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG
EST: gi|161812385|gb|FC095055.1|FC095055
EST:     GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGAC                         AAAGACCCTTACGTCGACCGCATCCGCTACAAGGACTCCAACCAGGAGAAG
genomic: GCAAGACAGTAGACGTCTACTTCACCAAGAAGCACGACTGGATTAGTGACgtgagtgatg ... tcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgttggctgcagcccgtgccttaccccttccgctcctgctcctgttcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAGAAGAAGGGTTTCTACACCTCAGATTTTTCCAAGCGTGATGAGTTCACCA
                 gccttac  putative branch site (score: 3)
                  ccttaccccttccgct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtgatgcagtgcaagcgcgttgtctgtgccgccgcgcttcgaggactgttgtttcatttgcatgccaaaaacacacgcgcgcacccgcgaggcccccgaccctgcgcacgttggctgcagcccgtgccttaccccttccgctcctgctcctgttcattcgcagAAAGACCCTTACGTCGACCGCATTCGCTACAAGGACTCCAACCAGGAGAAGAAGAAGGGTTTCTACACCTCAGATTTTTCCAAGCGTGATGAGTTCACCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG