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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatgtgcgcgagcggcatgctggaccccaaaccgccgcggtcatgcttacatttccccaccgagctaaccacaacatctccttcctcctcccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACATCAAGGAGAAGCTGTGCTACGTGGCCCTGGACTTCGAGCAGGAGATGGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO98923
intron # 6
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|10781299|gb|AV637979.1|AV637979
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|7687875|gb|AW758521.1|AW758521
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|10126118|gb|BE724822.1|BE724822
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|161800132|gb|FC086667.1|FC086667
EST:     GGACCTGGCGGGCCGCGACCTCACCGACTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|22069702|gb|BQ819234.1|BQ819234
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACNGCCGAGCGCGAAAT
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAAT
EST: gi|14228289|gb|BG847105.1|BG847105
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|161797057|gb|FC085662.1|FC085662
EST:     GGACCTGGCGGGCCGCGACCTCACCGACTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|14240923|gb|BG859739.1|BG859739
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTCACCACCACGGNCGAGCGCGAAATCGTGCGCGACA
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACA
EST: gi|23362091|gb|BU649911.1|BU649911
EST:     GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGG                         AGCGCGGCTACTCGTTC
genomic: GGACCTGGCGGGCCGCGACCTCACCGATTACCTGATGAAGATCCTCATGGgtgggtgcac ... ccttcgacagAGCGCGGCTACTCGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttacatttccccaccgagctaaccacaacatctccttcctcctcccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACATCAAGGAGAAGCTGTGCTACGTGGCCCTGGACTTCGAGCAGGAGATGGC
                 agctaac  putative branch site (score: 2)
                       ccacaacatctccttc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatgtgcgcgagcggcatgctggaccccaaaccgccgcggtcatgcttacatttccccaccgagctaaccacaacatctccttcctcctcccttcgacagAGCGCGGCTACTCGTTCACCACCACGGCCGAGCGCGAAATCGTGCGCGACATCAAGGAGAAGCTGTGCTACGTGGCCCTGGACTTCGAGCAGGAGATGGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
-atgtgcg
- - - - - - - - - - - - ccccaaa
- - - - - - - - - - - - - - - - - - - - - - gcttaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccaca