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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agcaagaccagggatcgcagaagctcacttgcctcggaacttgcaaagcacctgcgctgacgctctccatcccgttgtcccactcccccttcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAACTCCAAGTCGGTGAACGTGTCGTTCGGCTCCAAGGCGAACGAGGAGCGCG

Basic information

species Chlamydomonas reinhardtii
transcript EDP09986
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|10776210|gb|AV632890.1|AV632890
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCT
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCT
EST: gi|161793876|gb|FC078788.1|FC078788
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161807707|gb|FC096441.1|FC096441
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|10773930|gb|AV624753.1|AV624753
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161801821|gb|FC088759.1|FC088759
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|6540859|gb|AV386643.1|AV386643
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|23367708|gb|BU655526.1|BU655526
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161819826|gb|FC110201.1|FC110201
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|10774903|gb|AV625726.1|AV625726
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161792969|gb|FC081287.1|FC081287
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161814142|gb|FC100075.1|FC100075
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161811101|gb|FC095304.1|FC095304
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|49460667|gb|BP088580.1|BP088580
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|6544168|gb|AV389952.1|AV389952
EST:     GGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: GGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161820455|gb|FC106982.1|FC106982
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|161806756|gb|FC093125.1|FC093125
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTGAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|49459791|gb|BP087704.1|BP087704
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCA
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCA
EST: gi|23363336|gb|BU651156.1|BU651156
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|10780528|gb|AV637208.1|AV637208
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|49469966|gb|BP097827.1|BP097827
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|6544537|gb|AV390321.1|AV390321
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCCAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
EST: gi|7686781|gb|AW757429.1|AW757429
EST:     TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTG                         GTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC
genomic: TGTACAAGACCGTGGTGCCCGGCAACCCCCTGGACGACGTCAAGCTGCTGgtgagtgaga ... tcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagcacctgcgctgacgctctccatcccgttgtcccactcccccttcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAACTCCAAGTCGGTGAACGTGTCGTTCGGCTCCAAGGCGAACGAGGAGCGCG
         cgctgac  putative branch site (score: 3)
                 ctctccatcccgttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agcaagaccagggatcgcagaagctcacttgcctcggaacttgcaaagcacctgcgctgacgctctccatcccgttgtcccactcccccttcacccccagGTGCGCACCGTGTCTTCCATCCTGCGCTCCAACGCCCTGCGCAGCGTCAACTCCAAGTCGGTGAACGTGTCGTTCGGCTCCAAGGCGAACGAGGAGCGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - aagctca
- - - - - - - - - - - - - - - - - - - acttgca
- - - - - - - - - - - - - - - - - - - - - - -aagcacc