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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgcacgcagtgctgtcaacctgtcggaaatcttccaaacctgctaccaatcccagcatccatggagtcccttctgcctcacccccctccctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP00062
intron # 3
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|15910680|gb|BI816469.1|BI816469
EST:     CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCG                         ACCTTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
genomic: CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCGgtgagtttgc ... ctatccacagACCT-GTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
EST: gi|22069922|gb|BQ819399.1|BQ819399
EST:     CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCG                         ACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
genomic: CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCGgtgagtttgc ... ctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
EST: gi|22075625|gb|BQ824401.1|BQ824401
EST:     CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCG                         ACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
genomic: CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCGgtgagtttgc ... ctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
EST: gi|10126498|gb|BE725202.1|BE725202
EST:     CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCG                         ACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
genomic: CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCGgtgagtttgc ... ctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
EST: gi|23358756|gb|BU646576.1|BU646576
EST:     CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCG                         ACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
genomic: CGACCTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCGgtgagtttgc ... ctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
EST: gi|10771309|gb|AV622132.1|AV622132
EST:     CTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCG                         ACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
genomic: CTGGTCAAGTCCACTGCGCAGCACGTGACGTCCAAGCTGCCCACCGgtgagtttgc ... ctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accaatcccagcatccatggagtcccttctgcctcacccccctccctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG
                              gcctcac  putative branch site (score: 3)
                      tcccttctgcctcacc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgcacgcagtgctgtcaacctgtcggaaatcttccaaacctgctaccaatcccagcatccatggagtcccttctgcctcacccccctccctatccacagACCTGTCGGTGGCCAAGGCCCGCGAGCTGCTGTCGGCCTCGCTGGAGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- gcacgca
- - - - - - - - - - - - - - - - - -caaacct
- - - - - - - - - - - - - - - - - - - - - - - - aatccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatcca