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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtgcagtgccgcaatatccaatgcttgccacggtcaactgaggctattggatgcctgcataatgttcttgtccagaactgcccagacactgacattcaactccactgccggtgcccccaacgcaaccctcttggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGCCACAACGCTGATGACGTGGCCGAGACCGTGCTGCTCAACATCTTGCGAG

Basic information

species Chlamydomonas reinhardtii
transcript EDO97463
intron # 4
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|161805161|gb|FC089242.1|FC089242
EST:     AGATCGGCACCAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAG                         GCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
genomic: AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAGgtgcgtgcag ... tggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
EST: gi|16072208|gb|BI874204.1|BI874204
EST:     AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAG                         GCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
genomic: AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAGgtgcgtgcag ... tggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
EST: gi|15699523|gb|BI723828.1|BI723828
EST:     AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAG                         GCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
genomic: AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAGgtgcgtgcag ... tggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
EST: gi|14239268|gb|BG858084.1|BG858084
EST:     AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAG                         GCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
genomic: AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAGgtgcgtgcag ... tggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
EST: gi|14229546|gb|BG848362.1|BG848362
EST:     AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAG                         GCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC
genomic: AGATCGGCACTAAGAACAACTGCACCTTCTGCGGCGTCTTCCGGCGGCAGgtgcgtgcag ... tggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactgacattcaactccactgccggtgcccccaacgcaaccctcttggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGCCACAACGCTGATGACGTGGCCGAGACCGTGCTGCTCAACATCTTGCGAG
 cactgac  putative branch site (score: 2)
                                       ccctctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtgcagtgccgcaatatccaatgcttgccacggtcaactgaggctattggatgcctgcataatgttcttgtccagaactgcccagacactgacattcaactccactgccggtgcccccaacgcaaccctcttggtggccagGCGTTGGACCGCGGCGCGGTGCTGATGGGTGCCAACAAGATCGCCACCGGCCACAACGCTGATGACGTGGCCGAGACCGTGCTGCTCAACATCTTGCGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT