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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGATCCGCAACCTGGCGGCGGAGACGGAGCAGGAGTACGAGAAGGAGAAGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggcgagggagaggggcggagcggcgtttttggctgtattcggtggccttggaatcgctgtgtgcatgaggtatgcgcgtcggccttgcttgca...

Basic information

species Chlamydomonas reinhardtii
transcript EDP03982
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EDP03982 (Chlamydomonas reinhardtii), 5'ss of exon 12
lower sequence: PP1S276_75V6.1 (Physcomitrella patens), 5'ss of exon 6
GCAGATCCGCAACCTGGCGGCGGAGACGGAGCAGGAGTACGAGAAGGAGAAGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtgggg--------------cggcgagggagaggggcgg--agcggcgtttt-tggctgtattcggtg---gccttggaatcgctgtgtgcatgaggtatgcgcgtcg---gccttgcttgca------------------
 || || ||||||||    |      | ||||| |||||||||||||||||||| |||||| | ||||||    | ||||| || || ||||| || |||||                  |    |     ||   | |  |||  | | |  || | |  | |  |        |  ||| | |  |||  || ||| ||| |   |   ||||  ||||                    
CCAAATTCGCAACCTTATCGAAATTGCTGAGCAAGAGTACGAGAAGGAGAAGCTGAATGAGAGAATTGCGAAGTTATCGGGAGGTGTCGCCATTATTCAGgtatatgtcttcatttgtttcaatcataataagaatctgttagctccctgtcgtgacagcgtccactatatattctcaaattgttccgtgt-tgtggtttgcacaatgaaggcctctcttgacgtgggacttcctgcgcag
















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|22052891|gb|BQ810458.1|BQ810458
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|16072824|gb|BI874820.1|BI874820
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGATGGAGCTCAAGGAGAAGAACTCTGCGCGTGGA
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAG-CTGCGCGTGGA
EST: gi|16435777|gb|BM000997.1|BM000997
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|10778875|gb|AV635555.1|AV635555
EST:     GCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: GCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|8828679|gb|BE212409.1|BE212409
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|22068172|gb|BQ818111.1|BQ818111
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|10770164|gb|AV620989.1|AV620989
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|49465911|gb|BP093824.1|BP093824
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|22052894|gb|BQ810459.1|BQ810459
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|6542784|gb|AV388568.1|AV388568
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
EST: gi|22060239|gb|BQ813728.1|BQ813728
EST:     AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAG                         GTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG
genomic: AGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggc ... aacactgcagGTGGGCGCCCAGACCGAGACGGAGCTCAAGGAGAAGAAGCTGCGCGTGGAG

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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAGATCCGCAACCTGGCGGCGGAGACGGAGCAGGAGTACGAGAAGGAGAAGCTCAATGAGCGCATTGCGCGCCTGTCGGGCGGCGTGGCCATCATCCAGgtggggcggcgagggagaggggcggagcggcgtttttggctgtattcggtggccttggaatcgctgtgtgcatgaggtatgcgcgtcggccttgcttgca

- - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
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