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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcactgtgccaggaatatgcattgcggctgccgtgggtacggagggctccccgggtgtctggagcttccagggagctgacgcggatcctgccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACTCGGACTTCTTCGGCAGCGAGAAGCACTGCCTGGAATACATGCTCTCG

Basic information

species Chlamydomonas reinhardtii
transcript EDP06435
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|10792976|gb|AV630342.1|AV630342
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAN                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
EST: gi|10790553|gb|AV627919.1|AV627919
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGC
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGC
EST: gi|10791714|gb|AV629080.1|AV629080
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
EST: gi|6551962|gb|AV397746.1|AV397746
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
EST: gi|23366093|gb|BU653913.1|BU653913
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
EST: gi|10792134|gb|AV629500.1|AV629500
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
EST: gi|10793190|gb|AV630556.1|AV630556
EST:     TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACT
EST: gi|10791816|gb|AV629182.1|AV629182
EST:     TGCTCACGTATACACCTTTGGCTAGTACCGACTGGGCGTGCACGGCCCAG                         GGGCGGACATGGACACGCTGGTGGGGGGCCC
genomic: TGCTCACGTCTACACCTTCGGCTCGTACCGACTGGGCGTGCACGGCCCAGgtgtgcagga ... ccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctccccgggtgtctggagcttccagggagctgacgcggatcctgccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACTCGGACTTCTTCGGCAGCGAGAAGCACTGCCTGGAATACATGCTCTCG
                            agctgac  putative branch site (score: 3)
                                        tcctgcc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcactgtgccaggaatatgcattgcggctgccgtgggtacggagggctccccgggtgtctggagcttccagggagctgacgcggatcctgccgtacacagGGGCGGACATGGACACGCTGGTGGTGGGCCCGCGCTACGTGCTGCGGGACTCGGACTTCTTCGGCAGCGAGAAGCACTGCCTGGAATACATGCTCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - tgtgcca
- - - - - - - atatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtctg