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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaactcacatcctggcctgcagccccccccccccccccttgcacccccccccccacacacaccccacccgcccccgcccgcccgccgccacccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCCGACACGCCCTGGAACCCCGTGCGGGACGTGTGGTGGCACGCAGCCGTCC

Basic information

species Chlamydomonas reinhardtii
transcript EDO97232
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|49469783|gb|BP097644.1|BP097644
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|10794130|gb|AV631496.1|AV631496
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGG
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGG
EST: gi|10792296|gb|AV629662.1|AV629662
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|49469873|gb|BP097734.1|BP097734
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGC-AACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|49468921|gb|BP096782.1|BP096782
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|49469296|gb|BP097157.1|BP097157
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCAC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCAC
EST: gi|10792112|gb|AV629478.1|AV629478
EST:     TGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|10789106|gb|AV626826.1|AV626826
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCT
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCT
EST: gi|10793873|gb|AV631239.1|AV631239
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|10787916|gb|AV644588.1|AV644588
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|49470129|gb|BP097990.1|BP097990
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAG
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAG
EST: gi|49469654|gb|BP097515.1|BP097515
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|49470446|gb|BP098307.1|BP098307
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|49465538|gb|BP093451.1|BP093451
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|10790255|gb|AV627621.1|AV627621
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|10792354|gb|AV629720.1|AV629720
EST:     TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGACCATTGCGGACGACGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|10788133|gb|AV644805.1|AV644805
EST:     TCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: TCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
EST: gi|239841061|gb|GR282751.1|GR282751
EST:     CAAGACCATTGCGGACGACGCCGTCNAGCTGGGCAGCCA-GGCCGGGCAN                         GAGACCAGCAGTGTGCTGTGGCTTGGAGGTGGCCAACGCACTGGCTGCCGC
genomic: CAAGACCATTGCGGACGACGCCGTCAAGCTGG-CAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCT-GGAGGTGGCCAACGCACTGGCTGCCGC
EST: gi|10784406|gb|AV641078.1|AV641078
EST:     CGCCGTCAAGCTGGCAGCCAAGGCCGGGCAG                         GAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC
genomic: CGCCGTCAAGCTGGCAGCCAAGGCCGGGCAGgtgggcgagg ... cccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaactcacatcctggcctgcagccccccccccccccccttgcacccccccccccacacacaccccacccgcccccgcccgcccgccgccacccattgcagGAGACCAGCAGTGTGCTGTGCCTGGAGGTGGCCAACGCACTGGCTGCCGCCGACACGCCCTGGAACCCCGTGCGGGACGTGTGGTGGCACGCAGCCGTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- actcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - acacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacccgc