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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccgcacagccagacccctcacatctccccgccatcactattaccaccaccaccgccacggtgacctctcctcaccgctgccaccacctttccactcacagGACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGGGCAGCGGGCGGGGGCGGCCCTACATCCCGCCCGCCCCCACCAAGGCAGTGCTGGGGCACT

Basic information

species Chlamydomonas reinhardtii
transcript EDP06263
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|14238083|gb|BG856899.1|BG856899
EST:     TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAG                         GACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGG
genomic: TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAGgtgcggcgct ... ccactcacagGACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGG
EST: gi|14236409|gb|BG855225.1|BG855225
EST:     TCGGGCCGGAGGAGCCGNCGGTCAAGTACCTGGTGCAGGGGGCTTACCAG                         GACGAGTGGGTGCGCAAGAACCTGGAGGC
genomic: TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAGgtgcggcgct ... ccactcacagGACGAGTGGGTGCGCAAGAACCTGGAGGC
EST: gi|16432242|gb|BI997468.1|BI997468
EST:     TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAG                         GACGAGTGGGTGCGCAAGA
genomic: TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAGgtgcggcgct ... ccactcacagGACGAGTGGGTGCGCAAGA
EST: gi|14237994|gb|BG856810.1|BG856810
EST:     TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAG                         GACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGGGCA-CGGTCGG
genomic: TCGGGCCGGAGGAGCCGCCGGTCAAGTACCTGGTGCAGGGGGCTTACCAGgtgcggcgct ... ccactcacagGACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGGGCAGCGGGCGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaccaccgccacggtgacctctcctcaccgctgccaccacctttccactcacagGACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGGGCAGCGGGCGGGGGCGGCCCTACATCCCGCCCGCCCCCACCAAGGCAGTGCTGGGGCACT
                      tcctcac  putative branch site (score: 2)
                                     ccacctttccactc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccgcacagccagacccctcacatctccccgccatcactattaccaccaccaccgccacggtgacctctcctcaccgctgccaccacctttccactcacagGACGAGTGGGTGCGCAAGAACCTGGAGGCGGAGGCGGCGGGCAGCGGGCGGGGGCGGCCCTACATCCCGCCCGCCCCCACCAAGGCAGTGCTGGGGCACT

- - - agccaga
- - - - - - - -cctcaca
- - - - - - - - - - - - - - - ccatcac
- - - - - - - - - - - - - - - - - - - - -accacca
- - - - - - - - - - - - - - - - - - - - - ccaccac