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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcgtcgggcggggaccctgggggtgggtgcgtgcgggtgggggtgcggcacgggggtgggtgtagctactcagcaacggtacactgtcagcggcagagttccccgttcacccgcttgacctgggagcttgaatttcagtggtaactcctgtttgccccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG

Basic information

species Chlamydomonas reinhardtii
transcript EDP04017
intron # 4
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|15698339|gb|BI722644.1|BI722644
EST:     GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGG                         GTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
genomic: GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGGgtgcgtcggg ... ccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
EST: gi|15369695|gb|BI529121.1|BI529121
EST:     GGGGGAATGCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGG                         GTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
genomic: GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGGgtgcgtcggg ... ccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
EST: gi|49465129|gb|BP093042.1|BP093042
EST:     GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGG                         GTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
genomic: GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGGgtgcgtcggg ... ccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
EST: gi|10776383|gb|AV633063.1|AV633063
EST:     GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGG                         GTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
genomic: GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGGgtgcgtcggg ... ccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
EST: gi|15372790|gb|BI532216.1|BI532216
EST:     GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGG                         GTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
genomic: GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGGgtgcgtcggg ... ccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
EST: gi|10783485|gb|AV640157.1|AV640157
EST:     GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGG                         GTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
genomic: GGGGGAATCCATTACAGAGGGCACTATCGCAAACGTGCTGAAGAAGCAGGgtgcgtcggg ... ccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgcttgacctgggagcttgaatttcagtggtaactcctgtttgccccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG
                           tggtaac  putative branch site (score: 2)
                                 ctcctgtttgcccctt  CT-rich tract
                ttgaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcgtcgggcggggaccctgggggtgggtgcgtgcgggtgggggtgcggcacgggggtgggtgtagctactcagcaacggtacactgtcagcggcagagttccccgttcacccgcttgacctgggagcttgaatttcagtggtaactcctgtttgccccttgttcagGTGACGCTGTGAAGGAGGATGACATCATTGCGCAGATTGAGACGGACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT