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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagtagttcattacatagcatgtgatcgcaatattccatgtcggtggcagtgtcggtgaaggcatgcgtgtggccccgaccctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCTGTCGTTCTGGGCACCTTCGCCCCGCTG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04524
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|49462799|gb|BP090712.1|BP090712
EST:     TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
EST: gi|10785797|gb|AV642469.1|AV642469
EST:     TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
EST: gi|15692004|gb|BI716309.1|BI716309
EST:     CGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: CGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
EST: gi|161798131|gb|FC082667.1|FC082667
EST:     TCCCGGCCGCCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
EST: gi|161801047|gb|FC083110.1|FC083110
EST:     TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
EST: gi|10786302|gb|AV642974.1|AV642974
EST:     TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
EST: gi|8287117|gb|BE024676.1|BE024676
EST:     TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAG                         GCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT
genomic: TCCCGGCCGTCCGCCGCGTTGCTTGCCAGGCTTACAAGGGTGATGAGGAGgtcagtagtt ... accctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccatgtcggtggcagtgtcggtgaaggcatgcgtgtggccccgaccctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCTGTCGTTCTGGGCACCTTCGCCCCGCTG
                                              ccctctc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcagtagttcattacatagcatgtgatcgcaatattccatgtcggtggcagtgtcggtgaaggcatgcgtgtggccccgaccctctcagGCGCGCAACCCGCTCCAGAAGGCCGCAATTGGCCTGGCGACCGCTGCTGCTGTCGTTCTGGGCACCTTCGCCCCGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT