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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcaaagacacctacttgcttgtgccgacgggttcttgattgcatgacatctgcgccaaatggatgcgcgacctgagtcgtcacctgacgcataactgacatggagtcttaataatgacctgcactgattcatgtactccatgtctcgtatttccccctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAGGGCCCCTTCCAGAACCTGGTGGAGCACCTGGCTGACCCCGTCAACAACA

Basic information

species Chlamydomonas reinhardtii
transcript EDO97521
intron # 6
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|161819180|gb|FC109867.1|FC109867
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161806371|gb|FC088996.1|FC088996
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161812526|gb|FC099421.1|FC099421
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161814252|gb|FC102057.1|FC102057
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|16071827|gb|BI873823.1|BI873823
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161803217|gb|FC093236.1|FC093236
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161816281|gb|FC102117.1|FC102117
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|9210231|gb|BE337146.1|BE337146
EST:     AGGCTGCCATGAAGGACCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161818086|gb|FC102260.1|FC102260
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|6541678|gb|AV387462.1|AV387462
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|9458422|gb|BE452232.1|BE452232
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161792947|gb|FC081265.1|FC081265
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|7593234|gb|AW707373.1|AW707373
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|14234425|gb|BG853241.1|BG853241
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161799673|gb|FC085207.1|FC085207
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTAC
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTAC
EST: gi|161807653|gb|FC099806.1|FC099806
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161797639|gb|FC083696.1|FC083696
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161819941|gb|FC107508.1|FC107508
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|6547401|gb|AV393185.1|AV393185
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161792483|gb|FC080411.1|FC080411
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|16071987|gb|BI873983.1|BI873983
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
EST: gi|161813946|gb|FC105586.1|FC105586
EST:     AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTG                         GCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG
genomic: AGGCTGCCATGAAGGAGCTGAAGCTCAAGGAGATCAAGAACGGCCGCCTGgtgagcaaag ... cctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatgacctgcactgattcatgtactccatgtctcgtatttccccctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAGGGCCCCTTCCAGAACCTGGTGGAGCACCTGGCTGACCCCGTCAACAACA
           cactgat  putative branch site (score: 3)
                                tctcgtatttccccct  putative PPT
                                     tattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagcaaagacacctacttgcttgtgccgacgggttcttgattgcatgacatctgcgccaaatggatgcgcgacctgagtcgtcacctgacgcataactgacatggagtcttaataatgacctgcactgattcatgtactccatgtctcgtatttccccctcgcacagGCCATGCTCGCCATGCTGGGCTACGGCGCCCAGGCTGTGATGACCGGCAAGGGCCCCTTCCAGAACCTGGTGGAGCACCTGGCTGACCCCGTCAACAACA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA