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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaattattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag

Basic information

species Physcomitrella patens
transcript PP1S120_29V6.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: LOC_Os03g17230.1 (Oryza sativa), 5'ss of exon 1
------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaattattgagtttatgtagt-gttattttgcatagtccttctagcagagagaa-tgtatccgtggtcgtgcagcctccttgacctgcctccacaag
             ||| |  | || ||||| |||||||| ||||| || || || ||||| || ||||| || ||||||||||| || |||||||| ||||||||||||    | |    |||       ||| |     |   |    | |   | ||    ||||||  |     |    ||| ||| || ||  | |                                
CGACGTCGTCGAGCCCATCCTCCTCGAGGTCGACCAGATCTACCACCTCGCCTGCCCGGCATCCCCCGTCCACTACAAATTCAACCCCATCAAGACCATCatatcctttccactgcaaactctgctccacattttcgtacaaaaaacaaaggcctttgtctgcttgcattattgaattgctggagtgaaatggatatgag--------------------------------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G359234_T03 (Zea mays), 5'ss of exon 1
------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaat-tattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
             ||  |  | || |||||||||| ||| ||||| || || || || |||||||| ||||| ||||| | ||| ||||||||||| |||||||||||      | |   ||     || ||| ||  |  |||||       | ||  |  |   ||| ||| |  |  |        |||||   |||| |                            
CGATGTAGTCGAGCCAATCCTCCTCGAGGTGGACCGGATCTACCACCTCGCGTGCCCCGCGTCGCCTGTGCACTACAAGTACAACCCAATCAAGACGATCatatccttcacgactggatctcgccggttgattttgcttacattgaaagcgactcgttctgatcc-catcgtcttcttctcttttt---tgtatttctggtggc---------------------------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GRMZM2G370048_T01 (Zea mays), 5'ss of exon 2
------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaat-tattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
            |||  |  | || ||||| |||| ||| ||||| || ||||| || ||||||||||| |||||||| |  || ||||||||||| |||||||||||      | |   || |   || ||| ||  |  |||||       |  ||||    ||  |     || |    | | |  ||      ||||                              
CGATGTAGTCGAACCAATCCTCCTCGAGGTCGACCGGATCTACCACCTCGCATGCCCCGCGTCGCCCGTTCATTACAAGTATAACCCAATCAAGACGATCatatccttcacgactggatctcatcggttgattttgcttacattgaaagcgact--tgttcacctgttttcattttttttttgggtgggtggcgggctggtt-----------------------------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA13G19640.1 (Glycine max), 5'ss of exon 1
------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaa----ttattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
             ||  |  ||||||||||||| ||||| || || || || ||||| |||||||| ||||| ||||||| ||| ||  ||||||| ||||||||||| | |   ||   |  | | | ||           || || ||||    ||    | |||| | || |  || |        || |   || ||| || |  |   |  ||    | |         
CGACGTCGTTGAGCCGATTCTGCTGGAGGTGGATCAGATCTATCACCTCGCGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATCatatccttgtct---cgatgttctaactctaactcagcgttttttttaagttctaataactctttttt-cgtaatttttattttgcgttgagt---tctgtgatccttaa---ttattagtttac---------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: GLYMA10G05260.1 (Glycine max), 5'ss of exon 1
------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattc--tgaattattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
             ||  |  || ||||||| || ||||| ||||| || || ||||| |||||||| ||||| ||||||| ||| ||  ||||||| |||||||||||  |  |    | |||     | | ||   |  || || ||||   |   | |  |||| | || |  ||   |    | |      || ||| || |  |   |  ||| | | |         
CGACGTCGTTGAGCCGATTCTGTTGGAGGTTGATCAGATCTACCACCTCGCGTGTCCCGCGTCGCCGGTGCACTACAAATACAACCCCGTCAAGACCATCatatccttcctc-tctatgttctaactctgactcgccgtgtttttaagttccagc--tctcttttttcgtaattttttatgttttgtgttgaattctgtgatccttaa---ttgttggcttac---------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: AT3G53520.1 (Arabidopsis thaliana), 5'ss of exon 1
------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaattattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
             ||  |  | || ||||| || |||||||||||| | || ||||| || || || || |||||||| |  |||||| |||||||||||||||||||||   | |||| || |||     ||   || |  ||| | ||  |       || | || | |      | ||    |   ||   | | ||  |  ||| |||                  
CGATGTTGTTGAGCCAATCCTCCTTGAGGTCGATCAGATTTACCATTTAGCTTGTCCAGCTTCACCTGTTCATTACAAGTATAATCCAGTCAAGACTATCatatccttttgattacggg-tcgtga-----tttgcaagttctgattctaaat----ccgttataca-aatttaggcaacattaggttggtgatcattgttat-tagcatcc------------------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 5'ss of exon 1
------------------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaattattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
                         ||  |  | || ||||| || |||||||||||| | || ||||| || || || || |||||||| |  |||||| |||||||||||||||||||||   | |||| || |||     ||   || |  ||| | ||  |       || | || | |      | ||    |   ||   | | |                               
GCTAATTCGACACGATGTTGTTGAGCCAATCCTCCTTGAGGTCGATCAGATTTACCATTTAGCTTGTCCAGCTTCACCTGTTCATTACAAGTATAATCCAgtcaagactatcatatccttttgattacggg-tcgtga-----tttgcaagttctgattctaaat----ccgttataca-aatttaggcaacattaggttggtgatcattg-------------------------------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ23020 (Selaginella moellendorffii), 5'ss of exon 1
------------------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatcttgaatttattctgaattattgagtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
                         || ||| ||||||||||||| ||||| || ||  |||| || || ||||||||||| || ||||||||||| ||  ||||||| ||||||||||||| |  |  |   ||||   ||  | |   |     |  | | |  || || |||| | | |      || |     ||   |   |  |                                
GCTCATCCGGCACGATGTTGTGGAGCCGCTGCTGCTGGAGGTGGATCAGATCTATCACTTGGCCTGCCCTGCGTCGCCCGTCCACTACAAATTCAACCCGgtcaagacgatcatatccttttcttctttg---cttgttcttcgtttctttcgagcatctaacgc-gttttttttttcgttgcttccttaactcttggagctttcacaag--------------------------------

upper sequence: PP1S120_29V6.1 (Physcomitrella patens), 5'ss of exon 1
lower sequence: EFJ30517 (Selaginella moellendorffii), 5'ss of exon 2
------------------------ACCCCTGTTGCTGGAGGTGGACCAGATTTACCATCTGGCATGTCCGGCGTCGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcggg--atcttgaatttattctgaattattga-gtttatgtagtgttattttgcatagtccttctagcagagagaatgtatccgtggtcgtgcagcctccttgacctgcctccacaag
                         || ||| ||||||||||||| ||||| || ||  |||| || || ||||||||||| || ||||||||||| ||  ||||||| ||||||||||||| |  |  |    |  |   ||| ||  ||     | | |  | | |  | || ||||   | |      || |     ||   |   |  |                                
GCTCATCCGGCACGATGTTGTGGAGCCGCTGCTGCTGGAGGTGGATCAGATCTATCACTTGGCCTGCCCTGCGTCGCCCGTCCACTACAAATTCAACCCGgtcaagacgatcatatccttttcttctttgcttgttcttcgtttgtttcgagcatctaacgcgtgttttttttttttttttgttgcttccttaactcttggagctttcacaag--------------------------------

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|162239441|gb|FC414032.1|FC414032
EST:     CGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCA-A--------G                         ACCAACGTGGTGGGAACCTTGAACATGCTTGGATTGGCGAAGCGCATCGGA
genomic: CGCCCGTGCATTACAAATTCAATCCAATCAAGACTATCATATCCTTTTTTgttcgggatc ... cctccacaagACCAACGTGGTGGGAACCTTGAACATGCTTGGATTGGCGAAGCGCATCGGA