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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagctgttgtacaatataaatgacagctgcctgcgtgacactcgccaccaccggaccgggtcttaatctggactgctccacaaccgtgtaccacaacctcttgcgcggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTGTCCGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGC

Basic information

species Chlamydomonas reinhardtii
transcript EDO97201
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|16434220|gb|BI999446.1|BI999446
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|15691925|gb|BI716230.1|BI716230
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|15373328|gb|BI532754.1|BI532754
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|9441247|gb|BE441851.1|BE441851
EST:     GAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: GAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|161805835|gb|FC092789.1|FC092789
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|6542556|gb|AV388340.1|AV388340
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|15692209|gb|BI716514.1|BI716514
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
EST: gi|161817585|gb|FC103241.1|FC103241
EST:     ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAG                         GTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG
genomic: ATGACGAGGACTATGAGGAGAACTACACGGTCATGAAGGTGCAGgtgagctgtt ... ggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaatctggactgctccacaaccgtgtaccacaacctcttgcgcggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTGTCCGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGC
 tcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagctgttgtacaatataaatgacagctgcctgcgtgacactcgccaccaccggaccgggtcttaatctggactgctccacaaccgtgtaccacaacctcttgcgcggtgctgcagGTGGGCATGTTCGGCGACGTGAAGAAGTGGCAGAAGGACCTGGAGCGCCTGTCCGAGCAGTTCGACACGGAGGACGAGGAGGGGCTGCACTACATCCTGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG