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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaatattttgagagagatacatttggcgagttggtgctttgctgaatggtattccctttgtggtcattttcag

Basic information

species Arabidopsis thaliana
transcript AT1G51690.3
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 10
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtca-gtttcctaat----attttgagagagatacatttggcgagttggtgctttgctgaatggtattccctttgtggtcattttcag
|||||||| || ||||||||  |||| ||||| ||||||||||| |||||||||||||| | ||| ||||| | ||||| |||     ||  ||  | | ||     ||   ||      |       ||||   |     || |  || ||| |||
TTATGGGATATAAACATGGATTCAGGCCCAGTTGCAACTTTCCAAGTTCATGAATATTTAAGACCTAAGgtgaagtttcgtaacctgaatgatggcaaaaatgtcaatgttaagacatgtcacaatctaatgccgtgttaatt-tcatcttttgcag

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 10
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaatattttga-gagagatacatttggcgagttggtgctttgctgaatggtattccctttgtggtcattttcag-----
|||||||||||||| |||||  | |||||||| ||||| |||||||||||||| ||||| |  |||||||| || |||| | | ||| || |||  ||  ||||       || ||||||    | |  || |  ||   |  |  ||||  |     
TTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGgttagattccca-tgtttggatgagcaatgaattt------ctgctgctttatcaagttatagtaactggctcttttttttttggccag

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA15G02640.1 (Glycine max), 5'ss of exon 10
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaat--attttgagagagatacatttggcgagttggtgctttgctgaatggtattccctttgtggtcattttcag
|| |||||||| || |||||  |||| || || |||||||||||||||||||| ||||||| ||| |||||  | |   | ||  ||| |||      | |   ||    ||  | | | |      |  |  |   | | ||  | |   |||
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTGAGACCCAAGgtttgataagtgatgaattatgaatttctttctactgttttgtctgagttataactggttatgctttttgtttgaacgtgc-cag

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA07G01440.1 (Glycine max), 5'ss of exon 10
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaatattttgagagagatacatt-tggcgagttggtgctttgctgaatggtattccctttgtggtcattttcag-----
|||||||||||||| |||||  | |||||||| ||||| ||||||||||| || ||||| |  |||||||| || |||| |   || |   ||  ||      ||      || ||||||    | |  || |  ||   |  |  ||||  |     
TTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACATTCCAGGTTCACGAGTATTTAAGGCCAAAGgttagattcccatgtttatataagtaatgagcaatgaattcctgctgctttatcaagtcatagtaactggctcatttttttttggccag

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaatattttga-gagagatacatttgg-----cgagttggtgctttgctgaatggtattccctttgtggtcattttcag---------
|| |||||||| || |||||  |||| || || |||||||||||||||||||| ||||| | ||| ||||| || |||||  | ||| ||  || |||  |||  |     |    |  |||||||  || |  ||     ||     | || ||            
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctg-tgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataactggttatattttatgtttgaacatgccag

upper sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 10
TTATGGGACATCAACATGGACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcctaatattttgagagagatacatttggcgagttg---gtgctttgctgaatggta--ttccctttgtggtcattttcag--------
||||||||||| || |||||| |||| |||||  |||| |||||||||||||||||||| | ||| ||||| || || ||    |    | ||   ||||     | | ||     |   |  ||| ||| ||  ||  |  | || |  ||| |          
TTATGGGACATTAATATGGACTCAGGCCCAGTTTCAACCTTCCAGGTTCATGAATATTTAAGACCTAAGgtgagcttgctttcctcagaaaagtcttacacagaacaacttctacattactctctgcatgctaattttaccctctgtttctttccttctctccag

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|125146872|gb|EL181375.1|EL181375
EST:     ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAG                         CTCTGTGATTTATATAGAAAATGATTCCATCTTTGACAAGTTCGA
genomic: ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcc ... tcattttcagCTCTGTGATTTATAT-GAAAATGATTCCATCTTTGACAAGTTCGA
EST: gi|86070771|gb|DR366528.1|DR366528
EST:     ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAG                         CTCTGTGATTTATATGAAAATGATTCCATCTTTGACAAGTTCGAGTGTTGT
genomic: ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcc ... tcattttcagCTCTGTGATTTATATGAAAATGATTCCATCTTTGACAAGTTCGAGTGTTGT
EST: gi|86070769|gb|DR366526.1|DR366526
EST:     ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAG                         CTCTGTGATTTATATGAAAATGATTCCATCTTTGACAAGTTCGAGTGTTGT
genomic: ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcc ... tcattttcagCTCTGTGATTTATATGAAAATGATTCCATCTTTGACAAGTTCGAGTGTTGT
EST: gi|86070768|gb|DR366525.1|DR366525
EST:     ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAG                         CTCTGTGATTTATATGAAAATGATTCCATCTTTGACAAGTTCGAGTGTTGT
genomic: ACGCAGGTCCAGTAGCAACTTTCCAGGTTCATGAATATTTGAAACCAAAGgtcagtttcc ... tcattttcagCTCTGTGATTTATATGAAAATGATTCCATCTTTGACAAGTTCGAGTGTTGT