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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggtaccgggttctgggagggctacgtgcttgcgtgtttttacgcactgtgtgctggcatggtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04926
intron # 2
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|49466252|gb|BP094165.1|BP094165
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|10794354|gb|AV631720.1|AV631720
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49465037|gb|BP092950.1|BP092950
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAA
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49469013|gb|BP096874.1|BP096874
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49467949|gb|BP095810.1|BP095810
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49468728|gb|BP096589.1|BP096589
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49469720|gb|BP097581.1|BP097581
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|10791117|gb|AV628483.1|AV628483
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|10793000|gb|AV630366.1|AV630366
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49468010|gb|BP095871.1|BP095871
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49467077|gb|BP094990.1|BP094990
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|10794486|gb|AV631852.1|AV631852
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49467098|gb|BP095011.1|BP095011
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACC
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACC
EST: gi|10786480|gb|AV643152.1|AV643152
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49465976|gb|BP093889.1|BP093889
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACC
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACC
EST: gi|49470909|gb|BP098770.1|BP098770
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|10786326|gb|AV642998.1|AV642998
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49469972|gb|BP097833.1|BP097833
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49469982|gb|BP097843.1|BP097843
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
EST: gi|49465126|gb|BP093039.1|BP093039
EST:     AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAG                         GTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
genomic: AGGCGAGGGTGTTCAATGACCCGCAAATTGACCCTCGCAGATGCCAGCAGgttggtaccg ... gtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagggctacgtgcttgcgtgtttttacgcactgtgtgctggcatggtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG
                  tgttttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggtaccgggttctgggagggctacgtgcttgcgtgtttttacgcactgtgtgctggcatggtgattgcagGTTATTACCAAGCTGCTCTACCTGCTGAACCAGGGCGAGGTGTTCACCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT