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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcag

Basic information

species Physcomitrella patens
transcript PP1S123_138V6.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM2G018508_T03 (Zea mays), 5'ss of exon 6
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagag-attttcttcattctcttcaatttgctgcatt--gtgttcttctagcttgttagttctgtatttgatgtattattctgc--gtctttttatactgtttgcttcaagcaatatttctgttgtgcag
||||| || |||||||| || ||||| |||||||| |||||||| ||||| ||| |||| |||||||| ||||| || ||||| ||||| |||||||||||    |  | |    | |||   ||   ||| |  || |   | | |||  ||  | | |   || | |||   | |  ||| |    | | |||| ||                                 
GATGCAAAGAAAGGAGTTCTTTTTATCGACTTCCCTCCTGTTCTGCAGCTTCAGCTAAAACGTTTTGAATATGATTTCATGCGTGACACGATGGTGAAGgtttgtatcagtgcactaattagttttccttttcatcagtcaatttgctttcaggatttcaaagctctttttcgaggaaaattttagaagccctttttta---------------------------------

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GRMZM5G864266_T01 (Zea mays), 5'ss of exon 11
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcag
||||| ||||||||||| || ||||| |||||||| |||||| | || || ||| |||| |||||||||||||| || ||||| ||||| |||||||||||    |   |  ||  | | | |    ||   |   ||   ||  | | |||| | ||   | ||   | | ||   |  ||  | | | |  ||  | |  |                        
GATGCAAAAAAAGGAGTTCTTTTTATCGACTTCCCTCCTGTTTTGCAACTTCAGCTAAAACGTTTTGAGTATGATTTCATGCGTGACACGATGGTGAAGgttcgta---tcactggactatttagttttccttttcttccattacttttgcttttcaggattttagaagctctaaagtcatgattatatgtgaac-atgtatt------------------------

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: GLYMA10G23680.1 (Glycine max), 5'ss of exon 5
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcag
||||| |  || ||  |  | || || || ||||| |||||||||||||| |||||||| || |||||||| || | || ||||||||| ||||| ||||| |  |  ||   ||||      |||||    |    | ||   |   | ||| |   ||   | ||  |  | || |||  ||  || ||||  | |||  ||||                     
GATGCTAGGAAGGGTATGTTGTTCATTGATTTCCCACCTGTTCTTCAGCTTCAGTTAAAACGGTTTGAGTACGATTGTACGCGAGACACTATGGTAAAGgttagta--ttaaattcaagaa--tcaataaaatatcctttgcattgtgaacttctc--ttacat-ttaaacttttttttccccgcattattattatattttattca---------------------

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT3G11910.2 (Arabidopsis thaliana), 5'ss of exon 9
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcag
||||| |||||||| || ||||| |||||||| || || |||||||| || ||| | ||| | ||||| || || |||||| | |||||||||||||||||    |  |    |||    |   ||        ||   |||  |    |  | ||||   ||  ||| |  |    ||     | | |||| |                                 
GATGCAAAAAAAGGTGTTCTATTCATAGACTTTCCACCAGTTCTTCAACTTCAGCTCAAGAGGTTTGAATACGATTTTATGAGGGACACAATGGTGAAGgttggtatttgaaattccacttacccagcaaaaaacagcatgtagtgactgtgt-ttagacttgattttaagctgacgttac---tttctttacag--------------------------------

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: AT5G06600.1 (Arabidopsis thaliana), 5'ss of exon 9
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcag
||||| |||||||| || || || || ||||| || || |||||||| || ||| | ||| | ||||| |||||||||||| | ||||| ||||||||||| |  |  |    |    | |    |    |      |||| | | |  | ||| | || |  |  ||  ||  |  |  ||   |||||  |  |                               
GATGCAAAAAAAGGTGTTCTTTTCATTGACTTTCCACCGGTTCTTCAACTCCAGCTCAAGAGGTTTGAATATGACTTTATGAGGGACACCATGGTGAAGgttagtatttgaagtcacatgtacataggaagtgaatatgtggtatgc--gtttggtggtgccttgatttgtgagtgctgatgtagcttttattgatag-----------------------------

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: Vv08s0032g00600.t01 (Vitis vinifera), 5'ss of exon 9
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtcttttta-tactgtttgcttcaagcaatatttctgttgtgcag
||||| || || || ||| ||||||| |||||||| || |||||||| || ||| ||||||| |||||||||||||| ||||| ||||| ||||||||||| |  |    |     ||||||||   ||        |  ||  | |  | ||  | |||   | |||    | |     ||  | |  ||| || || |||                          
GATGCTAAGAAGGGTGTCTTATTTATTGACTTCCCACCAGTTCTTCAACTTCAGCTAAAGCGGTTTGAGTATGACTTCATGCGGGACACTATGGTGAAGgtcagta---ctaggaaattctctttgcttcatcatgattagtgttacatggtt--tggttgaatgttttgcttgtctccttgtatttcattagtattgattgtg------------------------

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 5'ss of exon 9
lower sequence: EFJ18164 (Selaginella moellendorffii), 5'ss of exon 7
GATGCGAAAAAAGGAGTCCTATTTATAGACTTCCCCCCTGTTCTTCAGCTACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagattttcttcattctcttcaatttgctgcattgtgttct-tctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcag
|||||    || || || || ||| | || || ||||||||||| ||||| ||  | ||||| ||||| ||||| ||| |||||||||||||||| ||||| |         ||| |    | |    ||| || || ||      |     |   |   | ||   |   | ||||   | | | ||  |||| |||   |                          
GATGCACGCAAGGGCGTGCTCTTTGTGGATTTTCCCCCTGTTCTCCAGCTTCAACTCAAGCGGTTTGAATATGATTTTGTGCGAGACACAATGGTTAAGgtaatag------cttgaactacgttgtgttggtggatggttcctagttccattcactgaatttgggct--gtttattgaacagtgcctaattatgctggcag--------------------------

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|67575556|gb|BJ948380.1|BJ948380
EST:     TACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAG                         ATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAAC
genomic: TACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagat ... tgttgtgcagATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAAC