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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggttttgccccgcgtcctccgccacgggactactgcgccacctccctcccatgccccggttcagccgagagtcttctaacgcccgcataacattcctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAGTTTGTCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP09856
intron # 1
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|15373500|gb|BI532926.1|BI532926
EST:     GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAG                         GTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
genomic: GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAGgtgggttttg ... ctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
EST: gi|8576773|gb|BE129410.1|BE129410
EST:     GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAG                         GTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
genomic: GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAGgtgggttttg ... ctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
EST: gi|10786251|gb|AV642923.1|AV642923
EST:     GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAG                         GTCATGGACAAGCATCTATCAATTCTGTGCAAGAAGCACTTGGAAACCAAG
genomic: GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAGgtgggttttg ... ctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
EST: gi|15373310|gb|BI532736.1|BI532736
EST:     GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAG                         GTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
genomic: GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAGgtgggttttg ... ctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
EST: gi|15370509|gb|BI529935.1|BI529935
EST:     GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAG                         GTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG
genomic: GAGAGGAGCGCATGATTTGCCACTTCTATCGCGAGAACTGGCCGTGCAAGgtgggttttg ... ctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgccccggttcagccgagagtcttctaacgcccgcataacattcctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAGTTTGTCAAG
                                          ttcctcacctc  CT-rich tract
                                    ataacatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgggttttgccccgcgtcctccgccacgggactactgcgccacctccctcccatgccccggttcagccgagagtcttctaacgcccgcataacattcctcacctcagGTCATGGACAAGCATCTATCGATTCTGTGCAAGAAGCACTTGGAAACCAAGTTTGTCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC