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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag

Basic information

species Physcomitrella patens
transcript PP1S372_38V6.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T13 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                   ||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| |||||||||| |||||  ||   | | ||  |  |  |||   ||   |  | | |||||     |||| |  |||   | ||  | |||                                                                                                  
-------------------CAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagcccccgtccctgactt-tgac---aacctttacttccaaat-----atgccactaattatgtctgtcttttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G110378_T03 (Zea mays), 5'ss of exon 3
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgc----atatacgactgtaattctcccatgcaaat--cgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                              | |   |||||||||||||||||  |||||||| | || |||||||||||| |||||||||| |||||  ||   |   || |    |    | |||  | || | | |    | |  | || |||| |  |||   |  |  | | | ||    ||                                                                                         
--------------------------TTCTTTAGAAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctag----------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T12 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                       | |     |||   ||||||||||||||||  |||||||| | || |||||||||||| |||||||||| |||||  ||   | | ||  |  |  |||   ||   |  | | |||||     |||| |  |||   | ||  | |||                                                                                                  
-----------------------TTCTGTAGAAA---TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagcccccgtccctgactt-tgac---aacctttacttccaaat-----atgccactaattatgtctgtcttttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G110378_T01 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgc----atatacgactgtaattctcccatgcaaat--cgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                                    |||||||||||||||||  |||||||| | || |||||||||||| |||||||||| |||||  ||   |   || |    |    | |||  | || | | |    | |  | || |||| |  |||   |  |  | | | ||    ||                                                                                         
----------------------------------AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagccccccctcccccctgacccccaacttgatttgtacaaccttatttccaagtatgccactaattatgtgtaccttctactcttctag----------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T09 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                                    |||||||||||||||||  |||||||| | || |||||||||||| |||||||||| |||||  ||   | | ||  |  |  |||   ||   |  | | |||||     |||| |  |||   | ||  | |||                                                                                                  
----------------------------------AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagcccccgtccctgactt-tgac---aacctttacttccaaat-----atgccactaattatgtctgtcttttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T11 (Zea mays), 5'ss of exon 1
------GTGTT-GCAAAGTGGTTG-AGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
       | |    |      ||| ||||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| |||||||||| |||||  ||   | | ||  |  |  |||   ||   |  | | |||||     |||| |  |||   | ||  | |||                                                                                                  
ATGATTCTATCCATATGCCACTTGCAGCAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACTGGAATGGTCAAGgtcagcccccgtccctgactt-tgac---aacctttacttccaaat-----atgccactaattatgtctgtcttttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T04 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                       | |     |||   ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||                                                                                                  
-----------------------TTCTGTAGAAA---TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtcctttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G053284_T01 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                          | ||| |   |||||||| |   |||| ||||||||  | ||||||||||||||| ||||||||||||||||  |    | |  |    |  | |   |  | |     |    ||     || |||| || |  |    |   ||| |     |||                                                                                       
-------------------------AACACTGAGGAATGGCTGAAG---AGGATGTCCAGCCCCTTGTGTGCGACAATGGCACTGGAATGGTTAAGgttcgttctcctgtccagcagccaatccttttgcctgtctattcattactgat-ctaataaac-tgatgggatcttgatgccaaacag--------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T08 (Zea mays), 5'ss of exon 1
------GTGTT-GCAAAGTGGTTG-AGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
       | |   ||      ||| ||||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||                                                                                                  
TTGATTTTATCCACATGCCACTTGCAGCAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtcctttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G104017_T04 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttacc----gcatatacgactgtaat-tctcccatgcaaatcgagcatgctaacaatcgcgcct-tgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                       | |     |||   ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  |     || ||       | |||  |  || | || ||||  |||||     |||| |  |||   |  | |  || | |||                                                                                              
-----------------------TTCTGTAGAAA---TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagtgcttttccccttaatttgtacagccatagtctcccccacccaaat-----atgccactaattttgtgtatctatcttctag---------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T02 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                   ||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||                                                                                                  
-------------------CAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtcctttag------------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G067985_T06 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttaccgcatatacgactgtaattctcccatgcaaatcgagcatgctaacaatcgcgccttgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                       | |     |||   ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  ||    |  ||      ||   |  ||   |    | |||||     |||| |  |||   | ||  | |||   | | |   ||  |||   |  |   | || |                                                                
-----------------------TTCTGTAGAAA---TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagccccttggccctg---acttgtacaacctttatttccaaat-----atgccactaattatgtctgtccttt---aggctggttttgctgggga--cgatgcaccaagg-------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G104017_T01 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttacc----gcatatacgactgtaat-tctcccatgcaaatcgagcatgctaacaatcgcgcct-tgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                                    |||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  |     || ||       | |||  |  || | || ||||  |||||     |||| |  |||   |  | |  || | |||                                                                                              
----------------------------------AAATGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagtgcttttccccttaatttgtacagccatagtctcccccacccaaat-----atgccactaattttgtgtatctatcttctag---------------------------------------------------------------------------------------------

upper sequence: PP1S372_38V6.1 (Physcomitrella patens), 5'ss of exon 2
lower sequence: GRMZM2G104017_T03 (Zea mays), 5'ss of exon 2
GTGTTGCAAAGTGGTTGAGCAGGTCCAAACTAAACCATGGCTGATGGTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgcttacc----gcatatacgactgtaat-tctcccatgcaaatcgagcatgctaacaatcgcgcct-tgcatttgctaaggtacattgtctgatcaatcatagtactatatacatatcggtcctctgcataatgcgcaaaatctgaaattaggtctggtttatttggcgcag
                   ||| ||   |  ||    ||||||||||||||||  |||||||| | || |||||||||||| | |||||||| |||||  |     || ||       | |||  |  || | || ||||  |||||     |||| |  |||   |  | |  || | |||                                                                                              
-------------------CAGTTCTGTAGAAA----TGGCTGATGGTGAGGACATCCAGCCTCTTGTCTGCGACAATGGCACCGGAATGGTCAAGgtcagtgcttttccccttaatttgtacagccatagtctcccccacccaaat-----atgccactaattttgtgtatctatcttctag---------------------------------------------------------------------------------------------

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|208377765|gb|DC940877.1|DC940877
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
EST: gi|100409313|gb|BY991949.1|BY991949
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
EST: gi|100379823|gb|BY949962.1|BY949962
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
EST: gi|162156866|gb|FC333020.1|FC333020
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
EST: gi|100417941|gb|BY993260.1|BY993260
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
EST: gi|67703871|gb|BJ964104.1|BJ964104
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCG
EST: gi|100360875|gb|BY965946.1|BY965946
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
EST: gi|100380171|gb|BY968883.1|BY968883
EST:     GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAG                         GCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG
genomic: GTGAGGAAGTCCAGCCTTTGGTGTGCGACAATGGCTCTGGAATGGTTAAGgtatgcatgc ... tttggcgcagGCTGGTTTCGCCGGAGACGATGCCCCCCGGGCTGTTTTCCCCAGCATCGTG