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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccggggcggcccgcccgaaaccccaacacgtcacccagagatccgcgcagcgggcgaaccaacacaatggccctctgataacctactgcatgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTGAACGAGGCCATCAACAAGCAGAACGCGCTGCTCCAGCACACCACCACCA

Basic information

species Chlamydomonas reinhardtii
transcript EDO96807
intron # 2
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|14231258|gb|BG850074.1|BG850074
EST:     AGGGCAAGATGCAATATTTATTCCATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
EST: gi|14231259|gb|BG850075.1|BG850075
EST:     AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
EST: gi|14231512|gb|BG850328.1|BG850328
EST:     AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
EST: gi|22072968|gb|BQ822322.1|BQ822322
EST:     AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGACATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
EST: gi|14231513|gb|BG850329.1|BG850329
EST:     AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
EST: gi|14231257|gb|BG850073.1|BG850073
EST:     AGGGCAAGATGCAATATTTATTCCATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
EST: gi|15700184|gb|BI724489.1|BI724489
EST:     AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGT
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGT
EST: gi|10789369|gb|AV645098.1|AV645098
EST:     AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGAC                         GCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG
genomic: AGGGCAAGATGCAATATTTATTCGATGAAAAGGGGCGACGCTACCTCGACgtgagtttgc ... tgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcagcgggcgaaccaacacaatggccctctgataacctactgcatgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTGAACGAGGCCATCAACAAGCAGAACGCGCTGCTCCAGCACACCACCACCA
                              tgataac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccggggcggcccgcccgaaaccccaacacgtcacccagagatccgcgcagcgggcgaaccaacacaatggccctctgataacctactgcatgctacgcagGCGTTTGCGGGCATTGTGACTGTAAGCGTGGGTCACTGCCACCCGGCCGTGAACGAGGCCATCAACAAGCAGAACGCGCTGCTCCAGCACACCACCACCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - aacccca
- - - - - - - - - - - - - - - tcaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctact