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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGTATGCTTTTCTCTATGCCAAGACTCATGGAAGAGAGAGAGTTTCTGCTATCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgttttataactccaagcatttcttatacggagggatcaaagcaatgattgttatttctgctagtttttttttttttacattttgttctgagaccatttttattttgcttccgtttttcag

Basic information

species Arabidopsis thaliana
transcript AT5G03290.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G120857_T02 (Zea mays), 5'ss of exon 4
AGAGTATGCTTTTCTCTATGCCAAGACTCATGGAAGAGAGAGAGTTTCTGCTATCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgttttataactccaagcatttcttatacggagggatcaaagcaatgattgttatttctgctagtttttttttttttacattttgttctgagaccatttttattttgcttccgtttttcag
|||||||||||| |  ||||||||| |  ||||  | || ||||| ||||| |||||||||||||| ||||||  ||| || || ||||| || |||||||||||   | |        |||    || |||||    |   ||  | ||  |   | ||||||||   ||   || |  |||     ||| || |   ||   |                       
AGAGTATGCTTTCCATTATGCCAAGGCCAATGGCCGGGAAAGAGTCTCTGCGATCCACAAAGCCAATATTATGAGGAAGACAGATGGTCTTTTCCTCAAGgtctgtgggcta-------ccattgtttccttatttttaatcatggatgcctttcgttttatttctttgagaacttatgctttcttgattttttattgtacttgtag---------------------

upper sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA10G06590.2 (Glycine max), 5'ss of exon 3
AGAGTATGCTTTTCTCTATGCCAAGACTCATGGAAGAGAGAGAGTTTCTGCTATCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgttttataactccaagcatttcttatacggagggatcaaagcaatgattgttatttctgctagtttttttttttttacattttgttctgagaccatttttattttgcttccgtttttcag
 ||||||||||||| |||||||||| |||||||||||||||| |||||||| || ||||||||||| |||||||| || ||||| || || || |||||||||  ||      |||  |  ||     | | |      ||  |||||    |  |  | | || |  ||    ||||||||||| |          | |  |||| ||                   
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccacca-----atacatataaatgcctataaatttttggtctcaaattt-tattcatgaattttattaacacttttttttttaaaaa-------aaaattatttatag------------------

upper sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA13G20790.1 (Glycine max), 5'ss of exon 3
AGAGTATGCTTTTCTCTATGCCAAGACTCATGGAAGAGAGAGAGTTTCTGCTATCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgt-tttataact-ccaagcatttcttatacggagggatcaaagcaatgattgttatttctgctagtttttttttttttacattttgttctgagaccatttttattttgcttccgtttttcag
 ||||||||||||| |||||||||| |||||||||||||||| |||||||| || ||||||||||| |||||||| || ||||| || || || |||||||||  ||  |  ||| || | || || | || ||   |  |   ||   |   |||| | |||||  |  |    ||||| || |||  | | |                                    
TGAGTATGCTTTTCACTATGCCAAGGCTCATGGAAGAGAGAGGGTTTCTGCCATACACAAAGCCAATATTATGCAAAAGACTGATGGCCTTTTCCTCAAGgtccaccaatacttacaaatgcctagaaatttttggtctcaa--attttattcatgaattttattattaatg--ctttttgttattatttctag------------------------------------

upper sequence: AT5G03290.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0040g01700.t01 (Vitis vinifera), 5'ss of exon 3
AGAGTATGCTTTTCTCTATGCCAAGACTCATGGAAGAGAGAGAGTTTCTGCTATCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgttttataactccaagcatttcttatacggagggatcaaagcaatgattgttatttctgctagtttttttttttttacattttgttctgagaccatttttattttgcttccgtttttcag
 |||||||| |||| |||||||||||| |||||||||||||| || || || || |||||||||||||| |||||||| ||||| || |||||||| ||||| || | |||  | ||  |  | | ||| |  | |  |   ||  |  | |||  |  || |   |  |||||| | ||| |                                             
TGAGTATGCATTTCACTATGCCAAGACCCATGGAAGAGAGAGGGTATCCGCAATACACAAAGCCAACATCATGCAGAAGACTGATGGCCTCTTTCTTAAGgt-tgtctgttaca-aatgcttaac-tttatgttgcataatcatttac-ctatgcatcctactaaggtgagttttctctttgtgttgcag--------------------------------------

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|124800851|gb|EH890438.1|EH890438
EST:     TGCAGAAAACTGACGGTCTCTTTCTCAAG                         TGTTGTCGTGAGGTTGCTGAGAAGTATCCTGAGATCACTTACGAGGAGGTC
genomic: TGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgt ... cgtttttcagTGTTGTCGTGAGGTTGCTGAGAAGTATCCTGAGATCACTTACGAGGAGGTC
EST: gi|124980567|gb|EL053511.1|EL053511
EST:     TCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAG                         TGTTGTCGTGAGGTTGCTGAGAAAGTATCCTGAGATCACTTACGAGGAGGT
genomic: TCCACAAAGCCAACATTATGCAGAAAACTGACGGTCTCTTTCTCAAGgtctgcccgt ... cgtttttcagTGTTGTCGTGAGGTTGCTGAGAA-GTATCCTGAGATCACTTACGAGGAGGT