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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag

Basic information

species Physcomitrella patens
transcript PP1S425_2V6.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
||||||||||| ||||| || |||||||| || || || ||||| |||||| | ||||| |||||  | ||||| |||||||| || ||||||||  |  ||| ||        ||| ||     |||  | | | |  |   |  || | | |  ||||||  ||| |    |     ||| |      ||     | |                                              
CTCTGTGATCTATATGAAAATGATTCAATATTTGACAAATTTGAATGTTGTCTGAGTGGGGATGGACTTCGTGTTGCAACTGGCTCTTACAGgtatctgcttgttct------cattatgag---ttaccaatgccgctaactattattttattt-ggaactactatatgttaactctccttgtggtgccttcaactgcag---------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
 | |||||||| ||||||||||| ||||| || || || |||||||||||| | ||||| |||||  | | ||| ||||||||||| ||  ||||   | ||||||     | ||  |    ||   |    |    | |  || |||||        | ||| | | |   ||| ||| ||                                                                
TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGTCTTAGTGGGGATGGACTCCATGTTGCAACTGGTTCATATGGgtattaccttgctcttgttcttagctacatatgaaaatgttatacttagaaatcatgtctgctgacaccttatttttg--catctgtattgcag------------------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GRMZM2G165418_T01 (Zea mays), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
||||||||||| || ||||| || ||||| ||||| ||||||||||| ||| | ||||| |||||  | ||||| ||||||||||| ||  ||||  || ||  ||    |   | | |  | | | ||      |  ||  || | | |  || |  | |||  || |   |   |||||||  | | |   |                                                    
CTCTGTGATCTGTACGAGAATGACTCAATTTTCGACAAGTTTGAGTGCTGTCTTAGTGGGGATGGACTTCGTGTTGCAACTGGTTCTTATGGgtatttctttcatccattattgactgta-cgtgtcat-----tttaaagaaatcctctctattaaca-cttccatttt--ctggtgtcttc--aaactgcag----------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA15G02640.1 (Glycine max), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
|| |||||| | ||||| || |||||||||||||||||||| || |||||| | ||||| |||||  |||| |||||||||||||| |||||||   | ||     |   || || | ||   |   ||      || |||      |||  |||       || |||| |  ||   | |  ||   || |||  ||                                                
CTTTGTGATTTATATGAAAATGATTCAATCTTCGATAAGTTCGAATGTTGTCTAAGTGGTGATGGATTGCGCGTAGCAACTGGTTCTTACAGgtctctgat-----acaaacttaatctgcggttcaatcgccgttggaat------tgtttatc------ctgcatcttacgat---tttgtttcacttgttgacag------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatat-gtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
|| |||||| | ||||| || |||||||| || |||||||||||||||||| | ||||| |||||  |||||||  |||||||||| |||||||| |          |  ||| | ||   |    | |  || |||| ||            ||  ||   ||  ||| |  || | || |  || |||    |                                                    
CTTTGTGATTTATATGAAAATGATTCAATTTTTGATAAGTTTGAGTGTTGTCTAAGTGGTGATGGATTGCGTGTTTCAACTGGTTCTTACAGgtatg----------gatacaaacttaatctatctgtg-gttctgtcat------------tcttgagtctgcttcttactattttgtttcatttgataccag----------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatat-gtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
|| |||||| | ||||| || |||||||| || |||||||||||||||||| | ||||| |||||  |||||||  ||||||| || |||||||| |  |||          | | ||    |   ||||     |||  |      ||| | ||  || | || |||| |  || | || |  || ||||   |                                                    
CTTTGTGATTTATATGAAAATGATTCAATTTTTGATAAGTTTGAGTGTTGTCTAAGTGGTGATGGATTGCGTGTTTCAACTGGCTCTTACAGgtatgggatta---------aaactt----aatctata-----tgtggt----tctgttattcttgagcctgcatcttactattttgtttcatttgattccag----------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
|| || ||| | ||||| || || |||||||| |||||||| || |||||| | ||||| |||||  ||||  ||||||||||||| |||||||         ||| |  ||| | ||   |      | |||  |||  |      |||  |||       || |||| |  ||   | |  ||   ||||||  ||                                                
CTTTGCGATTTATATGAAAATGACTCAATCTTTGATAAGTTCGAATGTTGTCTAAGTGGTGATGGATTGCGCTTAGCAACTGGTTCTTACAGgt---------ctctgatacaaacttaatccgtggttcagt--tgtcgttggaattgtttatc------ctgcatcttacgat---tttgtttcactttttgacag------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: AT1G17720.1 (Arabidopsis thaliana), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgt-acgtcattgctcagccacatattttggcatcttataagtcctgta-atgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
|| || ||||| ||||| || || || ||||| ||||| |||||||||||| | |||||||||||  || | |||||||| ||||| |||||||    |   |  ||  |     |||   | |  || |  ||| |||| | | |  |    ||| |  || || |   || || ||  ||| |   ||                                                          
CTATGCGATCTATATGAAAATGACTCCATCTTTGATAAATTTGAGTGTTGTCTGAGTGGCGATGGATTGAGGGTAGCAACAGGTTCTTACAGgttgacttgcttgtcttctggtcattgctgtacttt-tctgtcttgtataaggaataaactaatgaccaatttat---tatactta-atctccggtgaaccag-----------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
 | |||||| | ||||| || ||||||||||| ||||| ||||| |||||| | ||||| ||||| ||||||||||| || ||||| ||||||| |||  ||        |  | | ||        ||   | ||    |||| | | |       | |||   ||  |||   ||||  ||  ||                                                           
TTGTGTGATTTATATGAAAATGATTCAATCTTTGATAAATTTGAATGTTGTCTGAGTGGTGATGGAATGCGTGTAGCTACAGGTTCTTACAGgtccgttttt------taaattttctttatccaccattgtttct----tgaaccctctaccatgagtactaacata-aaattgatgtgatcccag-----------------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
 | || ||| | ||||| || ||||||||||| || ||||||||||||||| | ||||| ||||| |  || || ||||||||||| |||||||| | | ||  | |     || |||    | | |     |  | |       | | |        |  ||||   |||   |        |  | ||   |||   || |||   | ||||  |    | | |     | | | | ||| |||
TTGTGCGATTTGTATGAAAATGATTCAATCTTTGACAAGTTTGAGTGTTGTCTGAGTGGAGATGGAACTCGAGTTGCAACTGGTTCATACAGgtatgccttttttaa-----atttttgcagaaccttccttttttttcccccttcttctttccttttaggttgtcattaaggttggaagggatctggtt---gttgaaaccctttggaatgtgcaat---actaatactgtttccatggtcccag

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacg--tcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
|| |||||| | ||||| || ||||| |||||||| || |||||||||||| | ||||| |||||  | || || || ||||||||||||||||  |  | ||   | | ||| |  | | |  |||    || |||||     |      |    | | |  ||  || |||   |   | || | |  |  |||                                                    
CTGTGTGATTTATATGAAAATGATTCTATCTTCGACAAATTTGAGTGTTGTCTGAGTGGAGATGGACTACGAGTGGCGACTGGTTCCTACAGgtgtgatttatgcttgatccataattatagtgatcaataaaatcctgggccaagatgccttcgcctgaatatttgatgtaa-tgtggtttttttcatgtgattgcag-------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: EFJ09063 (Selaginella moellendorffii), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
 | |||||  | ||||||||||||||  | ||||| || || ||||| ||||| |||||||||||| | ||||||||||| || ||||||||||| |  ||   ||        |  |  |  | | |  ||   | | |||                                                                                                        
TTATGTGACTTGTATGAGAACGATTCTTTATTCGACAAATTCGAGTGCTGTTTAAGTGGCGATGGCCTCCGTGTAGCAACCGGATCCTACAGgtatgg-atgattcgagtttccaagtgtgtgtgtgacgagctttttcatgttttgcag------------------------------------------------------------------------------------------------

upper sequence: PP1S425_2V6.3 (Physcomitrella patens), 5'ss of exon 11
lower sequence: EFJ08844 (Selaginella moellendorffii), 5'ss of exon 11
CTCTGTGATCTTTATGAGAACGATTCAATCTTCGATAAGTTTGAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcattgctcagccacatattttggcatcttataagtcctgtaatgaagcatgtgaatcaggaacttgtatctaaacatatgtcttcttagatttttgttagtactcttccaagtgtggtaccgaattgaattattcttctttgtcacag
 | |||||  | ||||||||||||||  | ||||| || || ||||| ||||| |||||||||||| | ||||||||||| || ||||||||||| |  |    ||        |  |  |  | | |  ||   | | ||   || |   |                                                                                              
TTATGTGACTTGTATGAGAACGATTCTTTATTCGACAAATTCGAGTGCTGTTTAAGTGGCGATGGCCTCCGTGTAGCAACCGGATCCTACAGgtatgg-aggattcgagtttccaagtgtgtgtgtgacgagctttttcat--tgctttccag---------------------------------------------------------------------------------------------

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|162255329|gb|FC432055.1|FC432055
EST:     GAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAG                         CAACTTGTTCCGGGTATTTGGGGCCACTTCCGGAAGTGAGGAGGCATCAAC
genomic: GAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcatt ... tttgtcacagCAACTTGTTCCGGGTATTTGGGGCCACTTCCGGAAGTGAGGAGGCATCAAC
EST: gi|162150294|gb|FC326379.1|FC326379
EST:     GAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAG                         CAACTTGTTCCGGGTATTTGGGGCCACTTCCGGAAGTGAGGAGGCATCAAC
genomic: GAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcatt ... tttgtcacagCAACTTGTTCCGGGTATTTGGGGCCACTTCCGGAAGTGAGGAGGCATCAAC
EST: gi|162258030|gb|FC434124.1|FC434124
EST:     GAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAG                         CAACTTGTTCCGGGTATTTGGGGCCACTTCCGGAAGTGAGGAGGCATCAAC
genomic: GAGTGTTGTTTCAGTGGCGATGGCATGCGTGTAGCAACTGGTTCCTACAGgtacgtcatt ... tttgtcacagCAACTTGTTCCGGGTATTTGGGGCCACTTCCGGAAGTGAGGAGGCATCAAC