Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcagggtgttcgttctccacgtcactggctcgtgaactgcgtcagcaggtccctcttgtaaccaatgcaatctgctcctcctgtctcctgctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAGAGCGCCAAGAAGAAGAAGAACAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98981
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|15703348|gb|BI727653.1|BI727653
EST:     CCTCCATCATCACCTCGGCGCCCCGCCAGACCGTGACCACGGAGAAGAAG                         GTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
genomic: CCTCCATCATCACCTCGGCGCCCCGCCAGACCGTGACCACGGAGAAGAAGgtgcgcgggc ... gctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
EST: gi|14240160|gb|BG858976.1|BG858976
EST:     GCGCNCCGCCAGACCGTGACCACGGAGAAGAAG                         G-TGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
genomic: GCGCCCCGCCAGACCGTGACCACGGAGAAGAAGgtgcgcgggc ... gctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
EST: gi|14237054|gb|BG855870.1|BG855870
EST:     CCAGACCGTGACCACGGAGAAGAAG                         GTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
genomic: CCAGACCGTGACCACGGAGAAGAAGgtgcgcgggc ... gctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
EST: gi|22076195|gb|BQ824971.1|BQ824971
EST:     AGACCGTGACCACGGAGAAGAAG                         GTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG
genomic: AGACCGTGACCACGGAGAAGAAGgtgcgcgggc ... gctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcaggtccctcttgtaaccaatgcaatctgctcctcctgtctcctgctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAGAGCGCCAAGAAGAAGAAGAACAAG
           ttgtaac  putative branch site (score: 2)
                          tctgctcctcctgtct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcagggtgttcgttctccacgtcactggctcgtgaactgcgtcagcaggtccctcttgtaaccaatgcaatctgctcctcctgtctcctgctccaccagGTTGAGGACAAGGAGATCCTGGACCTGCTGGCCACGCCCATCAGCGCCAAGAGCGCCAAGAAGAAGAAGAACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - -tgttcgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgcaa