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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagctgaaatgactgcgcagtatgagggaattgccactgcactcgggccgattgagagtgccccatgaaggttgcgcgggcaccaggggcggcgctggcagggtccagaggggttccgggagtcgggtgggtgttgcatgggcgctgacaccatgttgcttgccggtgcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCAGCTAAGGCCACGGTGCAGACACTGCAGCACAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98081
intron # 4
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|15704435|gb|BI728740.1|BI728740
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|23366005|gb|BU653825.1|BU653825
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|15369548|gb|BI528974.1|BI528974
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|16072701|gb|BI874697.1|BI874697
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGNCCAGCTCTACCGCGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|14229761|gb|BG848577.1|BG848577
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|14229760|gb|BG848576.1|BG848576
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|16436996|gb|BM002216.1|BM002216
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|23363043|gb|BU650863.1|BU650863
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|14237609|gb|BG856425.1|BG856425
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|22068393|gb|BQ818332.1|BQ818332
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGNCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|23362874|gb|BU650694.1|BU650694
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGCGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|22073645|gb|BQ822983.1|BQ822983
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
EST: gi|22073669|gb|BQ823007.1|BQ823007
EST:     TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAG                         TACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA
genomic: TCAAGCAGCATGGGTGGGACGACGTGGGCAGCGACAAGATCGAGTCCAAGgtagctgaaa ... gcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgggtgggtgttgcatgggcgctgacaccatgttgcttgccggtgcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCAGCTAAGGCCACGGTGCAGACACTGCAGCACAG
                    cgctgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagctgaaatgactgcgcagtatgagggaattgccactgcactcgggccgattgagagtgccccatgaaggttgcgcgggcaccaggggcggcgctggcagggtccagaggggttccgggagtcgggtgggtgttgcatgggcgctgacaccatgttgcttgccggtgcacgcgcagTACACCTCGCGCGCGGCCCAGCTCTACCGTGCCCTGCTGGAGAAGGAGGCAGCTAAGGCCACGGTGCAGACACTGCAGCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG