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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcgccggcgccagtaagggcttgcggacaatgtttgatcactggggtttgttcgtttgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT

Basic information

species Chlamydomonas reinhardtii
transcript EDO96236
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|10784272|gb|AV640944.1|AV640944
EST:     GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAA                         GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
genomic: GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAAgtaagtgcgc ... tgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
EST: gi|10787146|gb|AV643818.1|AV643818
EST:     GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAA                         GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
genomic: GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAAgtaagtgcgc ... tgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
EST: gi|10784247|gb|AV640919.1|AV640919
EST:     GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAA                         GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
genomic: GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAAgtaagtgcgc ... tgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
EST: gi|49467137|gb|BP095050.1|BP095050
EST:     GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAA                         GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
genomic: GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAAgtaagtgcgc ... tgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
EST: gi|49470671|gb|BP098532.1|BP098532
EST:     GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAA                         GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
genomic: GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAAgtaagtgcgc ... tgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
EST: gi|49468466|gb|BP096327.1|BP096327
EST:     GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAA                         GAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTG
genomic: GCTTGCGAGTTTGACTACTCGGGCACCCAGGCTTGCAAGTCGCTGAAgtaagtgcgc ... tgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtaagggcttgcggacaatgtttgatcactggggtttgttcgtttgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT
                    gtttgat  putative branch site (score: 5)
                                           tttgcctc  putative PPT
                 aatgttt  TA-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtgcgccggcgccagtaagggcttgcggacaatgtttgatcactggggtttgttcgtttgcctcgcagGAAGGAGGGCTACCGCGTGATTCTGCTCAACTCCAACCCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG