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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtagtattgagctctactgtatgtcaatctaatggcatctgggacgcaagggtgctgtcggcctctgctatgccgctccgggagctgccggaattgcattcggcgacgcgcacttcctcaacggcatgtctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCGGACACCTGAGGAGGTGGAGCAGTACCGGCGCGAAAAACAGATTCACGTC

Basic information

species Chlamydomonas reinhardtii
transcript EDP09760
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|9458392|gb|BE452217.1|BE452217
EST:     CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCT                         GCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
genomic: CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCTgtaagtagta ... tctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
EST: gi|15696839|gb|BI721144.1|BI721144
EST:     CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCT                         GCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
genomic: CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCTgtaagtagta ... tctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
EST: gi|161790886|gb|FC080239.1|FC080239
EST:     CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCT                         GCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
genomic: CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCTgtaagtagta ... tctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
EST: gi|10788283|gb|AV644955.1|AV644955
EST:     CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCT                         GCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
genomic: CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCTgtaagtagta ... tctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
EST: gi|8286774|gb|BE024333.1|BE024333
EST:     CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCT                         GCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
genomic: CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCTgtaagtagta ... tctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
EST: gi|8933238|gb|BE227999.1|BE227999
EST:     CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCT                         GCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG
genomic: CGCGATGACCTCGATCGTATGGCGTTACCCCGCCCCGACTTTACGAACCTgtaagtagta ... tctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctgccggaattgcattcggcgacgcgcacttcctcaacggcatgtctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCGGACACCTGAGGAGGTGGAGCAGTACCGGCGCGAAAAACAGATTCACGTC
                                           tgtctccctc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtagtattgagctctactgtatgtcaatctaatggcatctgggacgcaagggtgctgtcggcctctgctatgccgctccgggagctgccggaattgcattcggcgacgcgcacttcctcaacggcatgtctccctcagGCCAAAGTTCGAGAAATGTTTCTACCTGGAGCACCCAGCCGTTAGCGGGCGGACACCTGAGGAGGTGGAGCAGTACCGGCGCGAAAAACAGATTCACGTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG