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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtggcacagctggtgtgttacagcattgcaggggagtacagggctgcccttttgaatctgaatgctactcctaccctgtcttgatcatctgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG

Basic information

species Chlamydomonas reinhardtii
transcript EDO98211
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|14235410|gb|BG854226.1|BG854226
EST:     AGTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAG                         GGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
genomic: AGTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAGgtaagtttgg ... tgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
EST: gi|22067707|gb|BQ817769.1|BQ817769
EST:     AGTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAG                         GGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGT
genomic: AGTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAGgtaagtttgg ... tgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGT
EST: gi|16432965|gb|BI998191.1|BI998191
EST:     GTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAG                         GGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
genomic: GTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAGgtaagtttgg ... tgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
EST: gi|15697032|gb|BI721337.1|BI721337
EST:     GTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAG                         GGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
genomic: GTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAGgtaagtttgg ... tgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
EST: gi|14236379|gb|BG855195.1|BG855195
EST:     AGTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAG                         GGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTG
genomic: AGTTCAAGACGTTCTGCCTGGAGGAGCTGCTGCTAGAGGCGCTGCCCAAGgtaagtttgg ... tgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcccttttgaatctgaatgctactcctaccctgtcttgatcatctgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG
                                  tcttgat  putative branch site (score: 4)
     ttttgaat  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtggcacagctggtgtgttacagcattgcaggggagtacagggctgcccttttgaatctgaatgctactcctaccctgtcttgatcatctgctgtgcagGGCATCGAGTCTGCCCGTAATGGACGTGCAGTAGACCCTGCCAGTGTTACG

- tggcaca
- - - - - - ggtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - -tttgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgaatg