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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caagtctttaccggtgcccaaataatagcgccaccacaccgctgcctatgttcaccccaccgaataacaccaacccgcctccaccccggcctaccatcagGGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCACGTGGAGCCCATGGGCGAGGAGTCTGACCACCTGCACATCGTGGCGGTCA

Basic information

species Chlamydomonas reinhardtii
transcript EDP05788
intron # 5
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|14233969|gb|BG852785.1|BG852785
EST:     CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTC                         GGCATGTACGACGAGCCTCCCACCACCGTAGAGCTGTTCTGCCAGCGGCAC
genomic: CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTCgtgagtcagt ... ctaccatcagGGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCAC
EST: gi|49468967|gb|BP096828.1|BP096828
EST:     CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTC                         GGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCAC
genomic: CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTCgtgagtcagt ... ctaccatcagGGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCAC
EST: gi|23358852|gb|BU646672.1|BU646672
EST:     CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTTCCATTCATCCTC                         GGCATGTACGACGAG
genomic: CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTCgtgagtcagt ... ctaccatcagGGCATGTACGACGAG
EST: gi|23367421|gb|BU655239.1|BU655239
EST:     CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTC                         GGCATGTACGACGAG
genomic: CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTCgtgagtcagt ... ctaccatcagGGCATGTACGACGAG
EST: gi|14233968|gb|BG852784.1|BG852784
EST:     CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTC                         GGCATGTACGACGAGCCTCCCACCACCGTAGAGCTGTTCTGCCAGCGGCAC
genomic: CGTCGTGTGAGGTGCAGCGCCGGGAAGACTTCTTCTTCCCATTCATCCTCgtgagtcagt ... ctaccatcagGGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatgttcaccccaccgaataacaccaacccgcctccaccccggcctaccatcagGGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCACGTGGAGCCCATGGGCGAGGAGTCTGACCACCTGCACATCGTGGCGGTCA
                gaataac  putative branch site (score: 2)
                 aataaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caagtctttaccggtgcccaaataatagcgccaccacaccgctgcctatgttcaccccaccgaataacaccaacccgcctccaccccggcctaccatcagGGCATGTACGACGAGCCTCCCGCCACCGTAGAGCTGTTCTGCCAGCGGCACGTGGAGCCCATGGGCGAGGAGTCTGACCACCTGCACATCGTGGCGGTCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - -ccaaata
- - - - - - - - - - - - - - - - accacac
- - - - - - - - - - - - - - - - - - - - - - - tatgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - -accccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaccaa