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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agccccactaaaccaactcgggggtttggcagggaagaggtacctagaggtcttctaataaccatacattatcccgctgcacctgctgctgctccgcagaCCGGGCGGGTGCACCTGCTGCCCCCAGTGGCGAAGCCCATCCCTCGGCCCACCTTCTTCTGGCTCTTTTAAACGCCAAGCACCAATGGGTGGACAGTTGG

Basic information

species Chlamydomonas reinhardtii
transcript EDP03737
intron # 5
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|16437541|gb|BM002761.1|BM002761
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|16437541|gb|BM002761.1|BM002761
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|14226285|gb|BG845101.1|BG845101
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|14226285|gb|BG845101.1|BG845101
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|16432958|gb|BI998184.1|BI998184
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|16432958|gb|BI998184.1|BI998184
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|8828203|gb|BE211837.1|BE211837
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|8828203|gb|BE211837.1|BE211837
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|16437542|gb|BM002762.1|BM002762
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|16437542|gb|BM002762.1|BM002762
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|14239075|gb|BG857891.1|BG857891
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|14239075|gb|BG857891.1|BG857891
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|14226284|gb|BG845100.1|BG845100
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-
EST: gi|14226284|gb|BG845100.1|BG845100
EST:     GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAG                         A
genomic: GGCGCAACTCGCCGCTGGCTGAGGCACTGTATGCGCTCAACCTGTACAAGgtaagtggag ... gctccgcaga-


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaggtcttctaataaccatacattatcccgctgcacctgctgctgctccgcagaCCGGGCGGGTGCACCTGCTGCCCCCAGTGGCGAAGCCCATCCCTCGGCCCACCTTCTTCTGGCTCTTTTAAACGCCAAGCACCAATGGGTGGACAGTTGG
          taataac  putative branch site (score: 1)
                                           ctgctcc  putative PPT
       ttctaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agccccactaaaccaactcgggggtttggcagggaagaggtacctagaggtcttctaataaccatacattatcccgctgcacctgctgctgctccgcagaCCGGGCGGGTGCACCTGCTGCCCCCAGTGGCGAAGCCCATCCCTCGGCCCACCTTCTTCTGGCTCTTTTAAACGCCAAGCACCAATGGGTGGACAGTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - -aaaccaa
- - - - - - - - - - -gggtttg
- - - - - - - - - - - - - - - - - - - - -acctaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atacatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacctgc