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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgcctccacgcaccgcgccccgcctcgtaacaccccacccgccatcttctgaccagtcatgcctggaaccctcggccccgcccccgccccactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTACATCGAGGTGCGCGACATCTGCGAGCCGCTGGACGACGGCACCAA

Basic information

species Chlamydomonas reinhardtii
transcript EDP02072
intron # 13
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|14228434|gb|BG847250.1|BG847250
EST:     ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|16433637|gb|BI998863.1|BI998863
EST:     GGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAACTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: GGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|23358398|gb|BU646218.1|BU646218
EST:     ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|15373415|gb|BI532841.1|BI532841
EST:     ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|23365054|gb|BU652874.1|BU652874
EST:     ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGGCGCTGCTGGGCCC-GTGGAGG
genomic: ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGG-CGCTGCTGGGCCCCGTGGAGG
EST: gi|15695447|gb|BI719752.1|BI719752
EST:     ATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: ATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|22050063|gb|BQ809048.1|BQ809048
EST:     ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|23367696|gb|BU655514.1|BU655514
EST:     GCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: GCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|14230194|gb|BG849010.1|BG849010
EST:     ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: ACAAGTGGCTGGCGTTCGTGAGCACCACCATGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
EST: gi|16437589|gb|BM002809.1|BM002809
EST:     TGGAGACCGCCAACCCTGAG                         GCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC
genomic: TGGAGACCGCCAACCCTGAGgtgcggagat ... cactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttctgaccagtcatgcctggaaccctcggccccgcccccgccccactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTACATCGAGGTGCGCGACATCTGCGAGCCGCTGGACGACGGCACCAA
  ttctgac  putative branch site (score: 2)
                               ccccgcccccgcccca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgcctccacgcaccgcgccccgcctcgtaacaccccacccgccatcttctgaccagtcatgcctggaaccctcggccccgcccccgccccactcctcagGCGGAGCTGTCTGCGGGCATGGCGCTGCTGGGCCCCGTGGAGGAGAAGTACATCGAGGTGCGCGACATCTGCGAGCCGCTGGACGACGGCACCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - -cacgcac
- - - - - - - - - - - - - - - acacccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgcct