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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtatgactcaaagccagtgataagattgcctttgtattgttatcttgcaatgttcgagctgaggatttggattataaatgattttacagtgaatgtagga...

Basic information

species Arabidopsis thaliana
transcript AT1G50300.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G50300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os09g12800.1 (Oryza sativa), 5'ss of exon 5
GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtatgact--caaagccagtg-ataagattgcctttgtattgttatcttgcaatgttcgagctg-aggatttggattataaatgattttacagtgaatgtagga---
|||||||||  | || ||||| || ||  | |||||||||||||| ||||||| ||| || ||||| |||||||||||||||||||| |||   || | || |    |   ||   | |||  |||  |  |   |||  ||||  || |  |||||  ||     || |||  ||   | | | |     
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACTAAGCCAGGTCACAATGAAGGTGGTGTGAGgtaagacatgcacaacctgcatgtggcatgttcattgctttgccagtta--aatagtcgaaatgtattatttgcctt-----tgctttggcatgaactatggtgagc

upper sequence: AT1G50300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os07g19560.2 (Oryza sativa), 5'ss of exon 5
GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtatgactcaaagccagtgataagattgcctttgtattgttatcttgcaatgttcgagctgagg-atttggattataaatgattttacagtgaatgtagga---
|||||||||  | || ||||| || ||  | |||||||||||||| |||||||  || || ||||| |||||||||||||| ||||| || | ||  |   ||   |   ||| | |||  | |      |  |  |   || |||   || |   ||     || |||  ||   | | |||     
GTGTGGCAACATAAATTGGGCAAAGCGGATGAAATGTAATATCTGTAACACCACCAAGCCAGGTCACAATGAAGGTGGTGTTAGgtaagagt-aagacgtatgcacaacctgcatgtgtcatatccatcagtcaaat---agttgaaatatattatttgcctctgctttggcatgaattatagtgagc

upper sequence: AT1G50300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G03260.1 (Glycine max), 5'ss of exon 4
GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtat--gactcaaagccagtgataagattgccttt--gtattgttatcttgcaatgttcgagctgaggatttggattataaatgattttacagtgaatgtagga
|||||| ||| |||| ||||| || ||    ||||| |||||||||||||| ||||| ||||| || ||||| |||||||| ||||||  || |  |  | | |  |     | | ||   || ||  |    | ||  ||   | |     |       |  ||     || |   ||| | |    
GTGTGGGAATATCAATTGGGCAAAGCGGACTAAATGCAATATCTGCAACACAAATAAGCCTGGGCATAATGAGGGTGGTGTAAGgtattggattggattctattcttttttatacattctagtgttagtgaagtacatagtggcacccagccacccctgatgaaagcctcttcatgatgactat----

upper sequence: AT1G50300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G11060.1 (Glycine max), 5'ss of exon 4
GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtat-gactcaaagccagtgataagattgcctttgtattgttatcttgcaatgttcgagctgaggatttggattataaatgattttacagtgaatgtagga
|||||| ||| |||| ||||| || ||    ||||| ||||||||||| || ||||| ||||| || ||||| |||||||| |||||| |  |  ||  |  | |||    | | |    | | |    |||||   |  ||  || |    ||   | |   |  |||| | |      |    
GTGTGGGAATATCAATTGGGCAAAGCGGACTAAATGCAATATCTGCAATACAAATAAGCCTGGGCATAATGAGGGTGGTGTAAGgtattggattgaattcttttatataccttcatgatgactatctatttgcatgctaggaagtgtgtgggtgtgcttttggtctttttcctgaagtcttttt-

upper sequence: AT1G50300.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv01s0010g01410.t01 (Vitis vinifera), 5'ss of exon 4
GTGTGGCAATGTCAACTGGGCGAAACGTCTAAAATGTAATATCTGCAACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtatgactcaaagccag----tgataagattgcctttg--tattgtt-atct-tgca-atgttcgagctgaggatttggattataaatgattttacagtgaatgtagga
|||||||||  | |||||||| || ||   ||| || ||||| |||||||||||||| ||||| || |||||||||||||||||||| |  | |  |  |     | ||  ||| |   |||  |||| || |||| |||| ||||  || |      |||    |   ||| || || |  |          
GTGTGGCAACATTAACTGGGCAAAGCGGACAAAGTGCAATATATGCAACACCAATAAGCCTGGCCATAATGAAGGTGGTGTGAGgtagggatgatggttatgttttaattggatggatgttggttattttttatctgtgcatatgtcagaaccacaatttttagctgacaataatcttcctttc---------

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|124885622|gb|EH964524.1|EH964524
EST:     AACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAG                         GGGAGGCCGTGGTGGTGGTTACAAGGAATTAGATG
genomic: AACACCAATAAACCTGGTCAGAATGAAGGTGGTGTGAGgtatgactca ... ctctaaatagGGGAGGCCGTGGTGGTGGTTACAAGGAATTAGATG