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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTCATTGTTTGGGATCCACCGGAGTTTTCTCGTGATCTTCTACCTAAATACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtataaattctctcgcgccctaatttctccaccattgatttctctaattgtactgtgtatagattatgatttcgttgaataatcttagtgcttgatgtgtttgataagatttatatgattcatgtgccaattttgatgaacag

Basic information

species Arabidopsis thaliana
transcript AT4G17750.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G17750.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA09G33920.1 (Glycine max), 5'ss of exon 1
CTTCATTGTTTGGGATCCACCGGAGTTTTCTCGTGATCTTCTACCTAAATACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtataaattctctcgcgccctaatttctccaccattgatttctctaattgtactgtgtatagattatgatttcgttgaataatcttagtgcttgatgtgtttgataagatttatatgattcatgtgccaattttgatgaacag
|||||| || ||||| ||||| |||||  |  | || ||| | || |||||||||||||||||||| ||||||||||| ||| | ||||||||||| || ||| || |   |  | ||    | |  ||||| |||  |  | |    |||   ||                                                                                           
CTTCATCGTGTGGGACCCACCCGAGTTCGCCAGAGACCTTTTGCCCAAATACTTCAAACACAACAACTTCTCCAGCTTCGTTAGACAGTTAAACACTTACgtatgtttttttcttttcttttctt--tttcttcac--tccactatgttaacgatag------------------------------------------------------------------------------------------

upper sequence: AT4G17750.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G01990.1 (Glycine max), 5'ss of exon 1
CTTCATTGTTTGGGATCCACCGGAGTTTTCTCGTGATCTTCTACCTAAATACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtataaattctctcgcgccctaatttctccaccattgatttctctaattgtactgtgtatagattatgatttcgttgaataatcttagtgcttgatgtgtttgataagatttatatgattcatgtgccaattttgatgaacag
|||||| || ||||| || ||| ||||| |  | || ||| | || |||||||||||||||||||| ||||||||||| ||| | ||||||||||| || ||| ||     ||| |||       | | | |  |  || | | | |  | || || | ||| | |  | | | |     | || ||   |  || |||| | | | |  |                                    
CTTCATCGTGTGGGACCCTCCGCAGTTTGCCAGAGACCTTTTGCCCAAATACTTCAAACACAACAACTTCTCCAGCTTCGTTAGACAGTTAAACACTTACgtatgt-----ttccctc----ttcactatgttaatgataggtgtttg-atttttattatgtgttgtgtgtcagtgtaa-gtatgattcaaaagcatgatctttctaacta------------------------------------

upper sequence: AT4G17750.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA16G13400.1 (Glycine max), 5'ss of exon 1
CTTCATTGTTTGGGATCCACCGGAGTTTTCTCGTGATCTTCTACCTAAATACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtataaattctctcgcgccctaatttctccaccattgatttctctaattgtactgtgtatagattatgatttcgttgaataatcttagtgcttgatgtgtttgataagatttatatgattcatgtgccaattttgatgaacag
 ||| | |||||| | || || |||||  |  | |||||  | || ||| ||||||| |||||||| ||||||||||| |||||||| ||||||||||| ||| |   || | |||       || | ||    ||  |     ||    | | | |  | | ||  ||   ||||| ||      | |||   ||       |||                                         
TTTCGTGGTTTGGAACCCTCCCGAGTTCGCCAGAGATCTCTTGCCCAAACACTTCAAGCACAACAACTTCTCCAGCTTCGTTCGCCAATTAAACACCTACgtatgc-caactcctcct----tcttactttcatactttgtcactcagagaatttgcgctttgtaattttcaatttcattttccgctattaa-actgcgcactttt-----------------------------------------

upper sequence: AT4G17750.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EDP02415 (Chlamydomonas reinhardtii), 5'ss of exon 3
CTTCATTGTTTGGGATCCACCGGAGTTTTCTCGTGATCTTCTACCTAAATACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtata-aattctctcgc-gccctaatttctccaccattgatttctctaattgtactgtgtatagattatgatttcgttgaataatcttagtgcttgatgtgtttgataagatttatatgattcatgtgccaattttgatgaacag
||||||||| ||| | |||||||||||| | || ||  | ||||| ||| ||||||| ||||||||||||||||||||||| |||||| | |||||||||||||||           | || || | ||  |  | ||| | | ||     |   || ||| | | ||      ||   | ||          |     |  | |                                            
CTTCATTGTATGGAAGCCACCGGAGTTTGCGCGGGACTTGCTACCCAAACACTTCAAGCACAACAATTTCTCCAGCTTTGTGCGCCAGCTCAACACCTATgtaagtccccggcaaggttgcagcaccaagcttgctacc-taggttcaaggaggggtgctgggaagaggggg-aatgcggctgggg-----cggccgccggggagcc------------------------------------------

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|19877004|gb|AU237835.1|AU237835
EST:     ACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTAT                         GGTTTTAGGAAAGTGGATCCAGATCGATGGGAATTTGCTAATGAAGGTTTC
genomic: ACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtataa ... tgatgaacagGGTTTTAGGAAAGTGGATCCAGATCGATGGGAATTTGCTAATGAAGGTTTC
EST: gi|86066510|gb|DR362267.1|DR362267
EST:     ACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTAT                         GGTTTTAGGAAAGTGGATCCAGATCGATGGGAATTTGCTAATGAAGGTTTC
genomic: ACTTCAAACACAACAATTTCTCCAGCTTTGTTCGCCAGTTAAACACCTATgtaagtataa ... tgatgaacagGGTTTTAGGAAAGTGGATCCAGATCGATGGGAATTTGCTAATGAAGGTTTC