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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgcatgggacaatgtacttgacgtgctgcaaggtgtcagagaacggtggtcatgatactttgccatggccacgacctcttgcccaactgttctcctgaattgagcgtgcgttgacactttgccctgtccctgtacccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACTTCTACGCAACCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP07960
intron # 1
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|15698479|gb|BI722784.1|BI722784
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|10793867|gb|AV631233.1|AV631233
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|49458966|gb|BP086879.1|BP086879
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|6543659|gb|AV389443.1|AV389443
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|49463497|gb|BP091410.1|BP091410
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|16073360|gb|BI875356.1|BI875356
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|10774419|gb|AV625242.1|AV625242
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|14240636|gb|BG859452.1|BG859452
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|14239865|gb|BG858697.1|BG858697
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|9210197|gb|BE337112.1|BE337112
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
EST: gi|16073377|gb|BI875373.1|BI875373
EST:     CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCG                         AGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT
genomic: CGTGGTTCCGCGGAGGGGTGTGGCCACCGCCGCCCAGAAGCAGCAGTTCGgtgcgcatgg ... acccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttctcctgaattgagcgtgcgttgacactttgccctgtccctgtacccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACTTCTACGCAACCTG
                    cgttgac  putative branch site (score: 4)
                                      tccctgtacccctc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgcatgggacaatgtacttgacgtgctgcaaggtgtcagagaacggtggtcatgatactttgccatggccacgacctcttgcccaactgttctcctgaattgagcgtgcgttgacactttgccctgtccctgtacccctcaagAGTCGTTTGATGATATGCTGGCGCGCTCGGAGCTCCCACTGCTGGTGGACTTCTACGCAACCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA