Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagactgcctccccttgcgctgtaacaactacacctggacagtgggcgccgcttaccgaattcttgtatatttcgtgttgccggtggcatgctgcacgcctcagtaacttgtcttgaggctgtcactgacccaccctcctgtcctgtcctgcgctcccgctcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCCGCCAACGGCCCCATGAAGGGCGTGCTGCACGTCGAGGACGCCCCCCTGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP09609
intron # 5
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|161817336|gb|FC101627.1|FC101627
EST:     CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAG                         GTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
genomic: CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAGgtgagactgc ... tcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
EST: gi|34993385|gb|CF567302.1|CF567302
EST:     CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAG                         GTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
genomic: CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAGgtgagactgc ... tcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
EST: gi|34990328|gb|CF564245.1|CF564245
EST:     CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAG                         GTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
genomic: CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAGgtgagactgc ... tcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
EST: gi|161822619|gb|FC109296.1|FC109296
EST:     CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAG                         GTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
genomic: CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAGgtgagactgc ... tcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
EST: gi|10776815|gb|AV633495.1|AV633495
EST:     CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAG                         GTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC
genomic: CCCTGCGCGTGCCCACCCCCACCGTGTCGGTCGTCGACCTGGTCGTCCAGgtgagactgc ... tcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaggctgtcactgacccaccctcctgtcctgtcctgcgctcccgctcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCCGCCAACGGCCCCATGAAGGGCGTGCTGCACGTCGAGGACGCCCCCCTGG
        cactgac  putative branch site (score: 2)
                                      ctcccgctc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagactgcctccccttgcgctgtaacaactacacctggacagtgggcgccgcttaccgaattcttgtatatttcgtgttgccggtggcatgctgcacgcctcagtaacttgtcttgaggctgtcactgacccaccctcctgtcctgtcctgcgctcccgctcaaccacagGTTGAGAAGAAGACCTTCGCCGAGGAGGTGAACGCCGCCTTCCGCGAGGCCGCCAACGGCCCCATGAAGGGCGTGCTGCACGTCGAGGACGCCCCCCTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC