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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggctagtttatgttttagctgtggcattatgcgtgtgatgttggtgatatcatagtatcatgtttgtaactattatcattttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttctttttaatag

Basic information

species Glycine max
transcript GLYMA06G09190.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os01g10150.1 (Oryza sativa), 5'ss of exon 12
--CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggctagtttatgttttagctgtggcattatgcgtgtgatgttggtgatatcatagtatcatgtttgtaactattatcat-tttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttctttttaatag
  |||| |  | || |||||  |||| |||||  | ||||||||||||||||||||||| || || |||||  |||||||||| |  | ||| |||||||||||     |  ||  || | | |  |   |||  |  |||  | ||  |  ||||   ||     |||  |||  |  | |||  | | || |||  || ||  | |                                                    
TTCAGTTT--CATCCTGTTCAGATCTGTGGGCTTTAATTATGGATGCTGGCACTGGTTTTACCGCCCAAGTACATGAACTCTCCCATTACTTTCTTCACAAGgtaaataa--ttgcgtgtcatcc-tactattgagtatgtattttttttcctatct--gtggttggttactaatca--agcatactcagctctatcctaatt-gccatc--------------------------------------------------

upper sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os05g11140.2 (Oryza sativa), 5'ss of exon 12
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggctagtttatgttttagctgtggcattatgcgtgtgatgt-tggtgatatcatagtatcatgtttgtaactattatcattttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttc----tttttaatag---------------------
    |||||||||||||| ||||| |||||  | || ||||||||||||||||| || ||  | ||||| ||||| || ||||     || |||||||||||  | || || |  || |    || | | | |  || |  ||  || |  |||| |  |      |  ||  |||| |  |||  | ||   ||   | | | ||||       ||   || |  | || | |||     ||||| |     |||| |||                      
TTCAGTGGCTTCTTGTTCAAATCTGTGGGCTTTAATAATGGATGCTGGCACTGGATTTACTTCTCAAGTATATGAGCTTTCTCAACATTTTCTTCACAAGgtgag-taattaaaattattatagtagtactctttgtttcctgcatgctcctatccttctcatccatcggtggctatcaatattacagct---tacactctcaataatagctaagtgtgatttacatggtttcacactgctatgttccaattgttttgatatgctcgcctatgatgctcttag

upper sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
lower sequence: GRMZM2G095634_T01 (Zea mays), 5'ss of exon 5
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggctagtttatgttttagctgtggcattatgcgtgtgatg--ttggtgatatcatagtatcatgtttgtaacta--ttatcattttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttctttttaatag
  |  |  | ||||||||  |||| ||||| || || ||||||||||| |||||||||||| | ||| ||||||| |||  |||    ||||||||||| ||  | |  | ||    || | |    |  |||   | | |     |    |  |  |    | | |||  ||| ||   ||| || || |||  || |     | |||||   | ||| |  |  ||||                               
TTGCATAACATCTTGTTCCGATCTATGGGCTCTAATCATGGATGCTGGAACTGGTTTCACATCCCAAATTTATGAGCTCATTCCACATTTCCTTCACAAAgtgag-tgatctacaccttggttcattctatataacttttacaaaataaccactttgtcaagtaaagttactaagtaagctattatcttctctacattgccaaat-ctaatggcggttt-atttccatgtgaag---------------------------

upper sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 5'ss of exon 12
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgt-tggctagtttat---gttttagctgtggcattatgcgtgtgatgttggtgatatcatagtatcatgttt-gtaactattatc-----attttatctgtatagtattttactaattttgttttgaacttaatgtagtc---taacaaactcatgtttctttttaatag------
|||||| || ||||||   ||| | ||||| || ||||||||||| ||||||||||| || |||||||||||||| || || ||||  || |||||||||||  | ||  ||| |   |||| | |  |||||| |    | |    ||     | ||||   || |  |||  | | ||| |||     || |||   |  || |  |||     |  |||| |  | ||||| |   |   | |  || | || ||| ||| |  |        
CAGTGTAGCGTCTTGTCAAAATTTGTGGGCGCTAATTATGGATGCAGGCACTGGTTTTACTGCACAAGTTTATGAGCTTTCACCCTATTTTCTTCACAAGgtgcgtctcatttcttttgtttaacccatggcat-acatatttatctttacatgtgtcatgcaattaaatttcatcagtatgatcgaggcatattacaaggctacttctttcagcttactgttatacatttaattttaacaagtgatcaattaatctttttttgttctgtctatag

upper sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S131_16V6.1 (Physcomitrella patens), 5'ss of exon 12
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggc---tagtttatgttttagctgtggcattatgcgtgtgatgttggtgatatcatagtatcatgtttgtaactattat-cattttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttctttttaatag
|||||||||||||||| | ||||| ||||| || ||||||||||| || || || || || || ||||||||||| || || |   | ||||| |||||||| ||    | || | |   | |  | | |  |  |   ||    | | ||  |   ||  ||  |    | |  || |||| |    |  |   | | |   | | || ||||                                               
CAGTGTGGCTTCTTGTACAAATCTGTGGGCTCTTATTATGGATGCGGGGACAGGATTTACTGCTCAAGTTTATGAGCTGTCACATGTATTCCTCCACAAGgtgggtgtgtggtgtctcgctcaagttttgggtagtatatgca--gcttgtcgttcaatgatagaacagctatccctgttatgcgccatgccctcacattgagtca-tatttttacag-------------------------------------------

upper sequence: GLYMA06G09190.1 (Glycine max), 5'ss of exon 12
lower sequence: PP1S66_174V6.1 (Physcomitrella patens), 5'ss of exon 12
CAGTGTGGCTTCTTGTTCTAATCTTTGGGCACTCATTATGGATGCTGGCACTGGTTTCACAGCACAAGTTTATGAACTCTCTCCCTTCTTCCTTCACAAGgttggctagtttatgttttagctgtggcattatgcgtgtgatgttggtgatatcatagtatcatgtttgtaactattatcattttatctgtatagtattttactaattttgttttgaacttaatgtagtctaacaaactcatgtttctttttaatag
|||||||||||||||| | ||||| ||||| || ||||||||||| || || || |||||||| |||||||| || || ||||   | ||||| || |||||  | |  |   || ||     |||    |    ||    | |    ||| |  | |   |   | | |       || |   |     | | ||||| |||                                                      
CAGTGTGGCTTCTTGTACAAATCTGTGGGCTCTTATTATGGATGCGGGGACGGGATTCACAGCCCAAGTTTACGAGCTGTCTCATGTTTTCCTCCATAAGgtaag-tgctcagtgattgtttagtgtttctgcttgttgtttttgaaggatctagttggccctcttcttttgtggaaattaacatggtcat-tggtattctacag----------------------------------------------------

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|15337521|gb|BI498177.1|BI498177
EST:     GAACTCTCTCCCTTCTTCCTTCACAAG                         GAATGGATTATGGAACAGTGGGAGAAGAATTATTACATAAGTGCCATAGCC
genomic: GAACTCTCTCCCTTCTTCCTTCACAAGgttggctagt ... tttttaatagGAATGGATTATGGAACAGTGGGAGAAGAATTATTACATAAGTGCCATAGCC