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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgctctcgtcgtagcaactttgcgcatgcgcgacaataaaaatatggactagtatgggctggacgacttgcattgacggcgctctggctggtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCCGCCTCCTCCGCCTCCTGCTAAGACCAGCTTTGGTGGTCTGAAGGATGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06369
intron # 1
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|23361305|gb|BU649125.1|BU649125
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCGGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|239841880|gb|GR283737.1|GR283737
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|16071923|gb|BI873919.1|BI873919
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCGGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|6541205|gb|AV386989.1|AV386989
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCGGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|239842178|gb|GR284035.1|GR284035
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|239841884|gb|GR283741.1|GR283741
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|49462110|gb|BP090023.1|BP090023
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCGGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
EST: gi|10780299|gb|AV636979.1|AV636979
EST:     CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGG                         GGTGCTTCGGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC
genomic: CAGCTTGCGGGAGCGCAGCTGACTGGCGCGCTGCAGGAGCTGAAGACTGGgtaagggata ... gtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggactagtatgggctggacgacttgcattgacggcgctctggctggtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCCGCCTCCTCCGCCTCCTGCTAAGACCAGCTTTGGTGGTCTGAAGGATGAG
                         cattgac  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgctctcgtcgtagcaactttgcgcatgcgcgacaataaaaatatggactagtatgggctggacgacttgcattgacggcgctctggctggtgcatgcagGGTGCTTCTGGCCTTCAGCACTGCCGCTCCCGCGGCTGGTGCTCCCCCTCCGCCTCCTCCGCCTCCTGCTAAGACCAGCTTTGGTGGTCTGAAGGATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - catgcgc
- - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - -tagtatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acttgca