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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCTGGCGCGAGTCTGAGATCACCCACGGCCGCGTTGCTATGCTTGCCGCTCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcggggttttagctgcaggaacaaagaacgctgcgcacgggccatatcagtgccgctcttcctgtcccctcgtccctccccctcgtccacgcattgcgtatccaagcgtagcgcatggctgacctttctgttcccttttccctcctgcctccccacccaacag

Basic information

species Chlamydomonas reinhardtii
transcript EDP01074
intron # 2
splice site 5'
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|22048050|gb|BQ808059.1|BQ808059
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
EST: gi|10773511|gb|AV624334.1|AV624334
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGC
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGC
EST: gi|15702037|gb|BI726342.1|BI726342
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
EST: gi|161812394|gb|FC095571.1|FC095571
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
EST: gi|23359144|gb|BU646964.1|BU646964
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTACCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTGCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
EST: gi|161800809|gb|FC084718.1|FC084718
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
EST: gi|22048920|gb|BQ808459.1|BQ808459
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
EST: gi|16072297|gb|BI874293.1|BI874293
EST:     TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCA                         ACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG
genomic: TCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcgg ... cacccaacagACTTCGACGGCCGCGTGTCTGGCCCCGCCATCTACCACTTCCAGCAGATCG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCTGGCGCGAGTCTGAGATCACCCACGGCCGCGTTGCTATGCTTGCCGCTCTGGGCTTCATCGTTGGCGAGCAGCTGCAGGACTTCCCCCTGTTCTTCAgtgagttcggggttttagctgcaggaacaaagaacgctgcgcacgggccatatcagtgccgctcttcctgtcccctcgtccctccccctcgtccacgcattgcgtatccaagcgtagcgcatggctgacctttctgttcccttttccctcctgcctccccacccaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG