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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag

Basic information

species Physcomitrella patens
transcript PP1S87_157V6.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os11g17080.1 (Oryza sativa), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||| | |||||||| |||||||| ||||| ||||| ||||||||||| |||||  | || |||||||||||| | ||||| ||||| || ||||||||||   | |    |      ||||||        || || |  ||| | | ||| |  ||| | |     || ||| ||  | ||                                                                               
AAAAAATATTTTGGCAAATGCTGATTGTAAGCTCAAAATATGTGATTTTGGCCTTGCAAGAGTTGCTTTCAGTGATACACCAACTGCCATCTTTTGGACGgtata--tcacttttcccccaacaattt----ctttatgtcctcaaagttt-cttataagcatcta-----tttcttgtatttttag------------------------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: LOC_Os05g05160.1 (Oryza sativa), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatg--gtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||| | ||||| || |||||||| ||||| ||||| |||||||| || |||||  |||| ||||| |||||| | ||||| ||||| |||||||||||| |   ||| || |     | ||| |  | |         ||  ||  | ||  || |  || | |||| |||  || |   | ||                                                                               
AAAAAATATCTTGGCGAATGCTGATTGTAAGCTCAAAATATGTGATTTCGGCCTTGCAAGGGTAGCTTTTAGTGATACTCCAACCGCCATCTTCTGGACGgtacgtcatttcacgcccactacacactatgcagctcattactcttaagatttatatcat--cagctaattgattt-ttctgtttttag------------------------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G062761_T02 (Zea mays), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgta--tggtttaaccctgttaatacaattcgaaatagt---acgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
 |||||| |  | || || ||||| ||||||||||| |||||||||||||| ||||| || ||  | |||| |||  | ||| | ||||| ||||||||||||     ||| |   |||| |   || |     | ||   ||  ||   | |||   |||||      ||  ||    |||||  || ||                                                                               
CAAGAATATTCTAGCCAATGCTGACTGCAAGCTGAAGATTTGTGATTTTGGCCTTGCCCGCGTTTCATTCAATGACACTCCATCAGCCATATTCTGGACGgtagccattttgatattgttgagcaaaattatgtttgttgaacagtcaagacttgattttctta----tgatgtagaatcttttg-ctgtag------------------------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GRMZM2G017351_T01 (Zea mays), 5'ss of exon 2
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggt-ttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||| |  ||||||| |||||||| ||||| ||||| ||||||||||| || ||  | || |||||||||||| | ||||| || || || ||||| |||||   |     |    | || | ||   |||  |  || |  |   ||  |||  | | | ||   ||||| |||   | |||    |  |                                                                        
AAAAAATATTCTGGCAAATGCTGATTGTAAGCTCAAAATATGTGATTTTGGCCTAGCAAGAGTAGCTTTCAGTGATACTCCAACCGCGATCTTTTGGACAgtatgccatcttttcaaccagtatacttttcaattct-tgtacctagtctg-gctttgtagaatcgg-ctaatttctt---aatctgtttttag------------------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA07G11470.1 (Glycine max), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatg-gtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaatt--ttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag----
||| ||| |  | || || |||||||||||||| ||| | |||||||||||||||||||| ||  | || | ||| |  ||| | || || |||||||| ||| |  ||  | |   || || || ||   | |  |   ||      || | ||| | |      |  |      ||||| ||  ||| |     |||||||  ||||    | |  ||  | |  ||| | |  || |   |   |  | || |  | |   | |     
AAAAAATATTCTAGCTAATGCTGATTGCAAGCTAAAATTATGTGATTTTGGACTTGCTCGAGTTTCATTTAATGAGGACCCATCAGCTATATTCTGGACTgtaagtattctagcaaattgatgcacttattagttctgtttt----gcttctgcttttgtcttttaagat------ttttagctggaaagtgcaa-tcaaattcattatttctgttccagaatcatccttctaaatattttgctgactgattttatctactctcttactaag

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA08G05700.1 (Glycine max), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgtta-taatatgtgt-atatcctattgttgagtgcttcag
||| ||| |  | || |||||||||||||| || ||||| ||||||||||| |||||||| ||  | || | |||||| ||| | || || |||||||| ||   ||  | |  |||     ||  | ||| |  ||| ||    |||| |  |        | || ||     ||||| | |   || |      |||||        ||||       ||| | ||||  | |  | | | || | ||||   | ||        
AAAAAATATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtg-agtgcaccattgtgtgaccatgttgaactgttacatttatcaattatgtt--------ctgacttttaagcttttgagtgggaaattg----caaatagccatctaggtttctccctaaacctgttgctgacttattttatctactatgaataag--------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA05G33980.1 (Glycine max), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||  |  | || |||||||||||||| || ||||| ||||||||||| |||||||| ||  | || | |||||| ||| | || || |||||||| ||   ||  | |  |||     ||  | |||    ||| ||    |||| |  |        | || ||   | ||||| | |   || |      ||||||       ||||       ||| | ||||     |  | | |   ||| | |||| |       
AAAAAACATTCTTGCTAACGCTGATTGCAAACTAAAAATATGTGATTTTGGGCTTGCTCGAGTTTCATTTAATGATGCTCCATCAGCTATATTCTGGACTgtg-agtgcaccattgtgtgaccatgttgaacggttacatttatcaattatgtt--------ctgacttttatgcttttgagtgggaaattg----caaattgccatctaggtttctccctaaacctgttgctg-acttattttatctact-ttgaataag----

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: GLYMA15G10940.4 (Glycine max), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatgg---tttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||  | || ||||| ||||| ||||| ||||| |||||||| ||||| |||||  | |||||||||| |||| | || || || ||||||||||| |||||    |||  |||||  | ||  |     ||| |||| |           |  ||| |    |   | |   ||| |||| ||       | | |   |                                                                 
AAAAAACATTTTAGCAAATGCTGACTGCAAACTGAAGATTTGTGACTTTGGTCTTGCCAGAGTGGCTTTCAATGATACTCCCACTGCTATTTTCTGGACAgtatgaatctttttccctgaaactatcaccttcaattgtacat-----------agctctctttctcagttcatcacctcttaattccgtttgtttgcttgcag----------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: AT5G19010.1 (Arabidopsis thaliana), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
 || ||  |||||||||| ||||||||||| || || || |||||||||||||||||  | || || |||| |||| | || || || || |||||||| ||  |   ||    | | ||| |         |    | ||   |  ||   ||| || | |   ||  ||||  || |  ||      |   | ||  |                                                                 
CAAAAACATATTGGCAAATGCTGATTGCAAACTCAAGATCTGTGATTTTGGACTTGCAAGAGTCGCATTCAATGATACACCGACTGCGATATTCTGGACTgtgagtagtagtaatttaaatgc---------ttactctttacaagtttactctttttggtatgaaaccaattttttattcctactgctttctgatcgcag----------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: Vv17s0000g02570.t01 (Vitis vinifera), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaa-----ttaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||| |  | || || || || |||||| |||| |||||||||||||| |||||||||||| | |||| |||||| ||| | || ||||||||||| |||||   ||  | ||  ||   | | |    |   |  | | | | || | | |     |    ||     ||| |  ||||||  |    |  ||   | ||| ||| |   || ||||   || | ||  | ||| |     ||| | || ||    ||        
AAAAAATATTCTTGCTAATGCCGACTGCAAGTTGAAGATTTGTGATTTTGGGCTTGCTCGGGTGTCATTCAATGATGCACCATCAGCTATTTTCTGGACAgtatg---tagtcttgccaaagtactcc----tgacatttgctgcatttctgcatacggccgagaaaattacttagtctcttttattttatgatact---ttaaaatttttgaaagctagaaactttaactaatcatatt-----tatttactttttcaaag--------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ38694 (Selaginella moellendorffii), 5'ss of exon 3
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||  |  | || || || || |||||||| ||||| |||||||||||||||||||| || ||||| |  ||||| || |||||||| || ||||| ||| |           | || ||||   | |     |  |  |   | | | ||| ||| ||                                                                                                       
AAAAAACATTCTTGCGAATGCCGACTGCAAGCTAAAAATCTGTGATTTTGGACTTGCTCGAGTTGCTTTTAACGATGCTCCGACGGCCATCTTTTGGACAgtaag-------tgcatcaa-acaa--aggatggacatatctg---actctcctttttttcaag-----------------------------------------------------------------------------------------------------

upper sequence: PP1S87_157V6.2 (Physcomitrella patens), 5'ss of exon 3
lower sequence: EFJ31453 (Selaginella moellendorffii), 5'ss of exon 2
AAAGAATGTATTGGCAAACGCTGATTGCAAGCTGAAAATTTGTGATTTTGGACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggtttaaccctgttaatacaattcgaaatagtacgttcggaaattgtacttctttgcaccgaattaattccttttaactctaaactctgggtcaaattttatcggaggtagagttttaagcttgttataatatgtgtatatcctattgttgagtgcttcag
||| ||  |  | || || || || |||||||| ||||| |||||||||||||||||||| || ||||| |  ||||| || |||||||| || ||||| ||| |         | | || ||||   | |     |  |  |   | | | ||| ||| ||                                                                                                       
AAAAAACATTCTTGCGAATGCCGACTGCAAGCTAAAAATCTGTGATTTTGGACTTGCTCGAGTTGCTTTTAACGATGCTCCGACGGCCATCTTTTGGACAgtaag-------tgtatcaa-acaa--aggatggacatatctg---actctcctttttttcaag-----------------------------------------------------------------------------------------------------

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|162191647|gb|FC367692.1|FC367692
EST:     GACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACG                         GATTATGTGGCCACAAGGTGGTATCGAGCTCCGGAGCTATGTGGTTCATTC
genomic: GACTTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggttta ... agtgcttcagGATTATGTGGCCACAAGGTGGTATCGAGCTCCGGAGCTATGTGGTTCATTC
EST: gi|18366249|gb|BJ198327.1|BJ198327
EST:     TTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACG                         GATTATGTGGCCACAAGGTGGTATCGAGCTCCGGAGCTATGTGGTTCATTC
genomic: TTGCTCGGGTGGCTTTCAGTGATGCGCCAACGGCCATTTTCTGGACGgtatggttta ... agtgcttcagGATTATGTGGCCACAAGGTGGTATCGAGCTCCGGAGCTATGTGGTTCATTC