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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgccctcccagccttccctcctctctttcctcctctcctccctcttgccctccctcctctcctttccccacccctcccttctcccttgcgcccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTCCAGGCCATTGTGGAGGCTAAGGACAAGCAGGCGGTGCCTCTCAAGCAGC

Basic information

species Chlamydomonas reinhardtii
transcript EDP04524
intron # 5
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|10785797|gb|AV642469.1|AV642469
EST:     TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG                         GCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
genomic: TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAGgtgcgtgcgc ... cccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
EST: gi|15692004|gb|BI716309.1|BI716309
EST:     TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG                         GCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
genomic: TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAGgtgcgtgcgc ... cccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
EST: gi|161798131|gb|FC082667.1|FC082667
EST:     TGACCCGCCAAAAGGATGCCATCATCAAGGACTTTGCTCCTGAGAAGAAG                         GCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
genomic: TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAGgtgcgtgcgc ... cccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
EST: gi|161801047|gb|FC083110.1|FC083110
EST:     TGACCCGCCAAAAGGATGCCATCATCAAGGACTTTGCTCCTGAGAAGAAG                         GCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
genomic: TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAGgtgcgtgcgc ... cccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
EST: gi|10786302|gb|AV642974.1|AV642974
EST:     TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG                         GCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
genomic: TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAGgtgcgtgcgc ... cccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
EST: gi|8287117|gb|BE024676.1|BE024676
EST:     TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAG                         GCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC
genomic: TGACCCGCCAAAAGGATGCCATAATCAAGGACTTTGCTCCTGAGAAGAAGgtgcgtgcgc ... cccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccctccctcctctcctttccccacccctcccttctcccttgcgcccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTCCAGGCCATTGTGGAGGCTAAGGACAAGCAGGCGGTGCCTCTCAAGCAGC
       cctcctctcctttccc  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgccctcccagccttccctcctctctttcctcctctcctccctcttgccctccctcctctcctttccccacccctcccttctcccttgcgcccttcccagGCGTTTGGCCTGGCCAACATTGACAAGCTGACGGAAGCGCTGACCGAGTTCCAGGCCATTGTGGAGGCTAAGGACAAGCAGGCGGTGCCTCTCAAGCAGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG