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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cagcgtcgcgccgtcctgagagcgtcagcatgcgctttctggaaagggtttggagctgaaacttaggacctgctgcctcccgcgtgcctcgcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAACATGTGCTCTGGCCTTCTGTCCAGGAATCCGACACTGCTCTACCGCGACG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06517
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|10785133|gb|AV641805.1|AV641805
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|49470981|gb|BP098842.1|BP098842
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10787043|gb|AV643715.1|AV643715
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10786295|gb|AV642967.1|AV642967
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10783509|gb|AV640181.1|AV640181
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10789408|gb|AV645137.1|AV645137
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10787049|gb|AV643721.1|AV643721
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10792472|gb|AV629838.1|AV629838
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10789568|gb|AV645297.1|AV645297
EST:     TGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: TGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10787593|gb|AV644265.1|AV644265
EST:     AGGCCAGCGTCCTGCAGTCCTGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: AGGCCAGCGTCCTGCAGTCC-GAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|6551371|gb|AV397155.1|AV397155
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|6551843|gb|AV397627.1|AV397627
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10791989|gb|AV629355.1|AV629355
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10793167|gb|AV630533.1|AV630533
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|6550948|gb|AV396732.1|AV396732
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|6550736|gb|AV396520.1|AV396520
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10784164|gb|AV640836.1|AV640836
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|49470702|gb|BP098563.1|BP098563
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGC
EST: gi|10789605|gb|AV626970.1|AV626970
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10787407|gb|AV644079.1|AV644079
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAATCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTC
EST: gi|6550849|gb|AV396633.1|AV396633
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10785920|gb|AV642592.1|AV642592
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10783846|gb|AV640518.1|AV640518
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|10792521|gb|AV629887.1|AV629887
EST:     CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: CGGCAGCTGCTGCATGGCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
EST: gi|6549782|gb|AV395566.1|AV395566
EST:     GCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTG                         GTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC
genomic: GCAGGCCAGCGTCCTGCAGTCCGAGTCGACGCTGgtgagctcgg ... gcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggtttggagctgaaacttaggacctgctgcctcccgcgtgcctcgcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAACATGTGCTCTGGCCTTCTGTCCAGGAATCCGACACTGCTCTACCGCGACG
             aaactta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cagcgtcgcgccgtcctgagagcgtcagcatgcgctttctggaaagggtttggagctgaaacttaggacctgctgcctcccgcgtgcctcgcgctcgcagGTCGAAGACTGGCTGGCAGCTATGCACCAGGTGGATGCGGAGGCTCGCAACATGTGCTCTGGCCTTCTGTCCAGGAATCCGACACTGCTCTACCGCGACG

- - - - - - - - - - - - - - catgcgc
- - - - - - - - - - - - - - - - - - - - - - -gggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaactta