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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaagtgatagcgcggttgtacgcggtttgagtacgctgctcaactggtgtactgacacgtttgcttgccgtttcccctggtgccccttcgcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCCCGCCAACTGGCGCCAGGAGCTGGAGAGCCTGCGCAACGGCAACGGCTCC

Basic information

species Chlamydomonas reinhardtii
transcript EDP05843
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|10778250|gb|AV634930.1|AV634930
EST:     GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAG                         CCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
genomic: GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAGgtgagcacac ... gcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
EST: gi|7687492|gb|AW758138.1|AW758138
EST:     GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAG                         CCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
genomic: GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAGgtgagcacac ... gcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
EST: gi|49464391|gb|BP092304.1|BP092304
EST:     GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAG                         CCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
genomic: GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAGgtgagcacac ... gcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
EST: gi|6544923|gb|AV390707.1|AV390707
EST:     GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAG                         CCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
genomic: GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAGgtgagcacac ... gcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
EST: gi|10787339|gb|AV644011.1|AV644011
EST:     GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAG                         CCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC
genomic: GCCGCCCGCGGCAGCTGGCGCGAGTCTTCCACTGCCACCGTGCAGGCCAGgtgagcacac ... gcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgtactgacacgtttgcttgccgtttcccctggtgccccttcgcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCCCGCCAACTGGCGCCAGGAGCTGGAGAGCCTGCGCAACGGCAACGGCTCC
     tactgac  putative branch site (score: 1)
                                    tgccccttcgcccct  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaagtgatagcgcggttgtacgcggtttgagtacgctgctcaactggtgtactgacacgtttgcttgccgtttcccctggtgccccttcgcccctgcagCCGCGCCTCGTCGGCCACCAACCGCGTGAGCCCCACCCGCTCCGTCCTGCCCGCCAACTGGCGCCAGGAGCTGGAGAGCCTGCGCAACGGCAACGGCTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - ttgtacg
- - - - - - - - - - - - - tttgagt
- - - - - - - - - - - - - - - - - - - - - - - - - -actgaca