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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtgcgacccgtgtactttgcctgctttgatgcctacgcgggctgactccaaacagctgagctttgccccgcgcgttccgccccgctgtacccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP02072
intron # 3
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|10772550|gb|AV623373.1|AV623373
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|14228932|gb|BG847764.1|BG847764
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|15692808|gb|BI717113.1|BI717113
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|15695185|gb|BI719490.1|BI719490
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|10792553|gb|AV629919.1|AV629919
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|10778846|gb|AV635526.1|AV635526
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|49461909|gb|BP089822.1|BP089822
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|23367697|gb|BU655515.1|BU655515
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|16072685|gb|BI874681.1|BI874681
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|23363461|gb|BU651281.1|BU651281
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|15695448|gb|BI719753.1|BI719753
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|8933063|gb|BE227824.1|BE227824
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|16437590|gb|BM002810.1|BM002810
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|16431544|gb|BI996770.1|BI996770
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|22050064|gb|BQ809049.1|BQ809049
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|49464632|gb|BP092545.1|BP092545
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|23365706|gb|BU653526.1|BU653526
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC
EST: gi|15697745|gb|BI722050.1|BI722050
EST:     ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAG                         CTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGTCCAGCCTGGGCCCC
genomic: ACCGCAACAACTACTACGGTGGCGAGTCCGCGTCGCTCAACCTCATCCAGgtgcggttca ... cccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actccaaacagctgagctttgccccgcgcgttccgccccgctgtacccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG
 ggctgac  putative branch site (score: 3)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtgcgacccgtgtactttgcctgctttgatgcctacgcgggctgactccaaacagctgagctttgccccgcgcgttccgccccgctgtacccgctgcagCTGTTTGAGCGCTTCCGCGCGGGCGCTGCGCCGCCGCCCAGCCTGGGCCCCTCGCGCGACTACAACGTGGACATGGTGCCCAAG

tgtgcga
- - - - - -tgtactt
- - - - - - - - - - - - - - - - - - - - - - - - ccaaaca