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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggtgctgcagctgaagcgcgctgtcatggaaggcgcgacagtaccatgcttaccggcttttccgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAGACTCCAACATTGTGATCATGCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04353
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|161804362|gb|FC089704.1|FC089704
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|9459748|gb|BE452889.1|BE452889
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|161815543|gb|FC101788.1|FC101788
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|161798278|gb|FC083487.1|FC083487
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|23363628|gb|BU651448.1|BU651448
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|9459215|gb|BE452496.1|BE452496
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|161821621|gb|FC108746.1|FC108746
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|9441236|gb|BE441840.1|BE441840
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|23359663|gb|BU647483.1|BU647483
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|16071620|gb|BI873616.1|BI873616
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|15701542|gb|BI725847.1|BI725847
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|6541367|gb|AV387151.1|AV387151
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|8828268|gb|BE211998.1|BE211998
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
EST: gi|16073328|gb|BI875324.1|BI875324
EST:     CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGG                         TAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG
genomic: CTACCGTGGCGCTGTCGGAGCCCTGCTGGTCTATGATATCACGAAGTCGGgtaggtgctg ... cgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgctgtcatggaaggcgcgacagtaccatgcttaccggcttttccgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAGACTCCAACATTGTGATCATGCTG
                             tgcttac  putative branch site (score: 2)
                                       cttttccgccttgc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggtgctgcagctgaagcgcgctgtcatggaaggcgcgacagtaccatgcttaccggcttttccgccttgcagTAACATTTGAGAACGTGGAGCGGTGGCTAAAGGAGCTGCGCGACCACGCAGACTCCAACATTGTGATCATGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG