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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggatcctagcttgagcattacgttacctagctgctgctaagctctgtttttcacttactacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97956
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|10793767|gb|AV631133.1|AV631133
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|161806299|gb|FC092278.1|FC092278
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAGGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|10790688|gb|AV628054.1|AV628054
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|10127224|gb|BE725928.1|BE725928
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|14229626|gb|BG848426.1|BG848426
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCT-
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|6546060|gb|AV391844.1|AV391844
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|161807848|gb|FC098961.1|FC098961
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAGGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|49464988|gb|BP092901.1|BP092901
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|15372595|gb|BI532021.1|BI532021
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|7615315|gb|AW720762.1|AW720762
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|161809306|gb|FC097065.1|FC097065
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAGGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|239841870|gb|GR283727.1|GR283727
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
EST: gi|9210378|gb|BE337293.1|BE337293
EST:     GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAA                         TGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
genomic: GAGCTGGGCTTCAGCGCGGCCAAGACCGCTGGCGGAGAAGCCCTGACCAAgtaggatcct ... ctacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcattacgttacctagctgctgctaagctctgtttttcacttactacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG
                                       cacttac  putative branch site (score: 2)
                                tgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggatcctagcttgagcattacgttacctagctgctgctaagctctgtttttcacttactacgtgcagTGCCTTCGTCACGGACGGTGTGCGCCATGCTTCCAATCAAGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG