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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgcgccatgccgcgcgcatagcacgtgtccacagtcacgctacccacgcacttcccacccctcacgccgtgctgccccgccacctccccacggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAGCTGCTCAAGGCGCTGCAGTACTGCCACTCCATGGGCATCATGCACAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97438
intron # 3
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|22070308|gb|BQ819697.1|BQ819697
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGAC
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGAC
EST: gi|161804206|gb|FC088079.1|FC088079
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
EST: gi|161800270|gb|FC084426.1|FC084426
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
EST: gi|161803595|gb|FC089415.1|FC089415
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
EST: gi|15692144|gb|BI716449.1|BI716449
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
EST: gi|14235702|gb|BG854518.1|BG854518
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
EST: gi|161797321|gb|FC084873.1|FC084873
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAG
EST: gi|15692080|gb|BI716385.1|BI716385
EST:     CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAG                         GTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACA
genomic: CGCGGACGCCCAGCCTCATCTTCGAGTACGTGGAGAACACCGATTTCAAGgtgcggggac ... acggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacgcacttcccacccctcacgccgtgctgccccgccacctccccacggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAGCTGCTCAAGGCGCTGCAGTACTGCCACTCCATGGGCATCATGCACAG
              ccctcac  putative branch site (score: 3)
                                      cctccccac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgcgccatgccgcgcgcatagcacgtgtccacagtcacgctacccacgcacttcccacccctcacgccgtgctgccccgccacctccccacggcctcagGTGCTGTACCCCACCCTGACGGACCTGGATATCCGCTACTACATCTACGAGCTGCTCAAGGCGCTGCAGTACTGCCACTCCATGGGCATCATGCACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - gcgcata
- - - - - - - - - - - - - - - -acagtca
- - - - - - - - - - - - - - - - - - - - - acccacg