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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacgcctcccccccaacccgggacctttcccacacccacgcctcaaccatggacacggacataatctgccctcgctgcccttgccccctccccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCCCATCAACTACGCCATCCACCGCTCCCGCTACAAGCGCTTCCCCGACAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97021
intron # 4
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|10127309|gb|BE726013.1|BE726013
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|161808877|gb|FC099535.1|FC099535
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|22076259|gb|BQ825035.1|BQ825035
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|161811725|gb|FC097462.1|FC097462
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|15693353|gb|BI717658.1|BI717658
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|10127422|gb|BE726126.1|BE726126
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|8932978|gb|BE227739.1|BE227739
EST:     CAGCGGACCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
EST: gi|14240027|gb|BG858843.1|BG858843
EST:     CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACG                         GCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC
genomic: CAGCGGCCCTGGAGCTCACCGGTGACAGACGCCTTTTATGACCCGGAACGgtgcgtttgc ... cccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accatggacacggacataatctgccctcgctgcccttgccccctccccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCCCATCAACTACGCCATCCACCGCTCCCGCTACAAGCGCTTCCCCGACAAG
                   tctgccctcgctgccc  CT-rich tract
             acataat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacgcctcccccccaacccgggacctttcccacacccacgcctcaaccatggacacggacataatctgccctcgctgcccttgccccctccccactgcagGCTGAAGGATCACGCGCCTGTGGACATCGCCAAAGCGCTGCAGACCACGCCCATCAACTACGCCATCCACCGCTCCCGCTACAAGCGCTTCCCCGACAAG

- - - - - -cccaacc
- - - - - - - - - - - - - - - -acaccca
- - - - - - - - - - - - - - - - - - - - -ctcaacc
- - - - - - - - - - - - - - - - - - - - - - - - atggaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacata