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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctctttccaagtccatagagagattttgatgaacagccaacttaatgagtcgcagtgttttcacaacag

Basic information

species Arabidopsis thaliana
transcript AT3G12250.5
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os01g17260.1 (Oryza sativa), 5'ss of exon 8
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgt----aagctctttccaagtccatagagag-attttgatgaacagccaacttaatgagtcgcagtgttttcacaacag---------------------
 ||    |||||||| ||  ||||||| || |||||||| |||||||||||| | |||||||||||||| || || |||||  ||||||| ||| | |||||    ||  |||| | | || | |   |   ||||     | |   | | |  |     |    | ||  || |||                       
CAAAGCAGATGTCTTTCATGTGTTATCAGGCATGTGGAAGACACCAGCTGAGAGGTGTTTCTTGTGGCTAGGAGGATTCCGACCATCCGAGCTTTTAAAGgtctgtaaagtcttacgatgttcttgttgtttatttgagccatccttctattgcaaagcccctcctattaccaaaaccaatgtttctaccataatattat

upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os01g59350.1 (Oryza sativa), 5'ss of exon 9
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctctttccaagtccatagagagatt-ttgatgaacagccaacttaatgagtcgcagtgttttcacaacag-------------------------
 ||    || || || ||  || | || |||||||||||||| || |||||| | || ||| ||||||| || || ||||| ||||| || ||||| ||||||||    | | |     |||  | |  |  | ||    |  |  |     ||| |  | || |  |   |                            
CAAAGCAGACGTTTTTCATGTGCTGTCGGGAATGTGGAAAACCCCTGCTGAGAGGTGCTTCATGTGGCTAGGTGGCTTCCGATCATCTGAGCTTCTTAAGgtaagaatatactattattatattgcgcctacttattttgaagcctcacccggaggcaaaatgctgacctgaatatatattattttaattgatccaatat

upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G26280.1 (Glycine max), 5'ss of exon 10
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagct---------ctttccaagtccatagagagattttgatgaacagc-----caacttaatgagtcgcagtgttttcacaacag------------
||||  |||||| ||||| ||| | ||||| |||||||||||||| |||||| | ||||| ||||||||||| || || || ||||| |||||||||||||| || |         | ||   | || |     |   |||    ||| |       |  ||| | |    |||| || |   ||               
TAAGGCTGATGTTTTCCATTTGCTGTCTGGCATGTGGAAAACACCTGCTGAGAGGTGTTTTTTGTGGCTTGGTGGTTTTCGGTCATCTGAACTTCTCAAGgtgaggttatgctgatccttttcattctagtttcatggtttagaaaacgggttttgtagattagtaatggacagttttgtttaaattttttaaaaagaag

upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G37220.1 (Glycine max), 5'ss of exon 6
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctctttccaagtccatagagagattttgatgaacagccaacttaatgagtc-------gcagtgttttcacaacag----------------------
||||  |||||| ||||| ||||| ||||| |||||||||||||| |||||| | ||||| ||||||||||| || || || ||||| ||||| |||||||| || | || |  |  |  |  |    | | | |  |  |   |   |||| ||        |||||  ||   | |                         
TAAGGCTGATGTTTTCCATTTGTTGTCTGGTATGTGGAAAACACCTGCTGAGAGGTGTTTTTTGTGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgtcaggttttgctgatccttttcat---tctggtttcatggtttagaaaatgggttttctagagcagtaattgggccattttgtttaaatttttttaagaaaa

upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G39050.2 (Glycine max), 5'ss of exon 8
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctctttccaagtccatagagagattttgatgaacagccaacttaatga-gtcgcagtgttttcacaacag--------------------------
||||  |||||||||||| ||||| |||||||||||||| |||||||| ||| | |||||  | |||||||| || || || ||||| ||||| |||||||| ||||  ||      || | ||     | |   | |  |     | || ||  | |     |||  | ||                             
TAAGGCTGATGTCTTCCATTTGTTGTCTGGAATGTGGAAGACACCAGCAGAGAGGTGTTTTCTATGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgtgagctgatttgtgacccttcgatttgctgtt-cgcatggtttgttgaaagatattgtgacttttctaaaaagtagtttttcttggtaacatacagagta

upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G44270.1 (Glycine max), 5'ss of exon 8
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctc-tttccaagtccatagagagattttgatgaacagccaacttaatgagtcgcagtgt----tttcacaacag---------------------
||||  |||||||||||| ||| | |||||||||||||| |||||||| ||| | |||||  | |||||||| || || || ||||| ||||| |||||||| ||||  |||   | |  |       | |||| ||  |       ||  |||    || |||    ||||  || ||                     
TAAGGCTGATGTCTTCCATTTGCTGTCTGGAATGTGGAAGACACCAGCAGAGAGGTGTTTTCTATGGCTTGGTGGTTTTCGGTCATCTGAACTCCTCAAGgtgagctgatttgtgattgtaacccttcagtttgctgctctcaaggtttgttgaaagacattgtggcttttctaaaaagtagttttcttggtaacataca

upper sequence: AT3G12250.5 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv13s0084g00660.t01 (Vitis vinifera), 5'ss of exon 10
TAAGAATGATGTCTTCCACTTGTTATCTGGAATGTGGAAAACACCAGCTGAGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaag---ctctttccaagtccatagagagattttgatga---------acagccaacttaatgagtcgcagt--gttttcacaacag------------
 |||  |||||| ||||| || ||||| || |||||||||||||| || ||| | ||||| ||||||||||| || ||||| ||||| ||||| || |||||| |   || || |||  |  || |     || || ||          ||   || | | |  | |   ||   |  ||||   |              
CAAGGCTGATGTTTTCCATTTATTATCAGGCATGTGGAAAACACCTGCAGAGAGGTGTTTTTTGTGGCTTGGTGGTTTCCGTTCATCTGAACTCCTAAAGgtatgacccttttaccattttgatggtttccttctgttggggtattcagaccctcaccctgacaaataataggaagacttcatctccatatccatttctt

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|86063162|gb|DR358919.1|DR358919
EST:     AGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAG                         CTTCTTGCGAATCAGCTA
genomic: AGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctctt ... ttcacaacagCTTCTTGCGAATCAGCTA
EST: gi|116415731|gb|EG458323.1|EG458323
EST:     AGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAG                         CTTCTTGCGAATCAGCTAGAGCCCATGACAGAACGACAGGTAATGGGCATC
genomic: AGCGATGTTTCTTGTGGCTTGGCGGGTTCCGCTCATCCGAACTTCTCAAGgtaagctctt ... ttcacaacagCTTCTTGCGAATCAGCTAGAGCCCATGACAGAACGACAGGTAATGGGCATC