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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaacttcttctgcttgagttcatcttacagctaccaaaagtcatgtagaaactaataccaatatcaaaacgttcgaagttgatttggctgacttaaagatattgatctctaaccatcatttgaaaagtctaaagctttcaagttcatttcccaaagctgtttttatgatattttgtcttgtgtattctcag

Basic information

species Arabidopsis thaliana
transcript AT3G52940.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G52940.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os01g25189.5 (Oryza sativa), 5'ss of exon 15
GGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaact-tcttctgcttgagttcatcttacagctaccaaaagtcatgtagaaactaataccaatatcaaaacgttcgaagttgatttggctgacttaaagatattgatctctaaccatcatttgaaaagtctaaagctttcaagttcatttcccaaagctgtttttatgatattttgtcttgtgtattctcag
|||||||||||||||||||||||| ||||| ||  |  |||| ||||| || || || || || |||||||  |||| |   |  |||     |     |||   |   |     | ||   || |  ||||     || | ||| | ||  |                                                                                                                   
GGGAATTGCAAGGCACTGTAATTATCTTGGGGATATACTGCTAGCTCTTTCATTTAGCTTACCCTGTGGAACCAGgtgatgatgatctttggaaacaactctcttattcaatttgattctcataaaccctaa-----atcttaaacccttttag------------------------------------------------------------------------------------------------------------------

upper sequence: AT3G52940.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: LOC_Os01g25189.4 (Oryza sativa), 5'ss of exon 12
GGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaact-tcttctgcttgagttcatcttacagctaccaaaagtcatgtagaaactaataccaatatcaaaacgttcgaagttgatttggctgacttaaagatattgatctctaaccatcatttgaaaagtctaaagctttcaagttcatttcccaaagctgtttttatgatattttgtcttgtgtattctcag
|||||||||||||||||||||||| ||||| ||  |  |||| ||||| || || || || || |||||||  |||| |   |  |||     |     |||   |   |     | ||   || |  ||||     || | ||| | ||  |                                                                                                                   
GGGAATTGCAAGGCACTGTAATTATCTTGGGGATATACTGCTAGCTCTTTCATTTAGCTTACCCTGTGGAACCAGgtgatgatgatctttggaaacaactctcttattcaatttgattctcataaaccctaa-----atcttaaacccttttagtgcag-------------------------------------------------------------------------------------------------------------

upper sequence: AT3G52940.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA13G21450.2 (Glycine max), 5'ss of exon 12
GGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaacttcttctgcttgagttcatcttacagctaccaaaagtcatgtagaaactaataccaatatcaaaacgttcgaagttga-----tttggctgacttaaagatattgatctctaaccatcatttgaaaagtctaaagctttcaagttcatttcccaaagctgtttttatgatattttgtcttgtgtattctcag
||| ||||| || |||||||||||||| || || |||||||||||||| ||||| || || |||||||| ||||||| | |||||   ||          |||     |   ||||| ||| | |   |  ||    | | |||     ||| ||  |     | |   | ||| ||  ||   |                                                                                       
GGGTATTGCTAGACACTGTAATTACCTAGGGGATTTGATGCTTGCTCTCTCCTTTAGCTTACCATGTGGGATAAGgtgatttctttaactcattgcttaattatgttgatataaagttatggatat-ttgttatttttctaaaagaaaacgatgtcaaacatttgtattttactcaattatgcag---------------------------------------------------------------------------------------

upper sequence: AT3G52940.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA10G07580.1 (Glycine max), 5'ss of exon 4
GGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaacttcttctgcttgagttcatcttacagctaccaaaagtcatgtagaaactaataccaatatcaaaacgttcgaagttgatttggctgacttaaagatattgatctctaaccatcatttgaaaagtctaaagctttcaagttcatttcccaaagctgtttttatgatattttgtcttgtgtattctcag
||| ||||| || | |||||||||||| || || |||||||||||||| ||||| || || |||||||| ||||||| |  ||||   ||        | | |     |   ||| | ||| |  |  |  ||    | | |||     | | ||  |      ||  ||  |   |||  | |  |                                                                                
GGGTATTGCTAGACGCTGTAATTACCTAGGGGATTTGATGCTTGCTCTCTCCTTTAGCTTACCATGTGGGATAAGgtgatctctttaactcattgctttatcatgttgatataaacttatg-aatatttgttatttttgtaaaagaaaacaatgtcaaac-atttgtattttactcatt--tttgcag-------------------------------------------------------------------------------

upper sequence: AT3G52940.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv08s0007g03930.t01 (Vitis vinifera), 5'ss of exon 12
GGGAATTGCAAGGCACTGTAATTACCTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaacttcttctgcttgagttcatcttacagctaccaaaagtcatgtagaaactaataccaatatcaaaacgttcgaagttgatttggctgacttaaagatattgatctctaaccatcatttgaaaagtctaaagctttcaagttcatttcccaaagctgtttttatgatattttgtcttgtgtattctcag
|||||| ||||||||||||||||||||||| |||||| || | || |||||||| ||||| || ||||| ||||||||| | ||        |  ||||  |      ||  |  || |  ||   || | |  || | |   || ||||    ||  ||   ||   ||  ||                                                                                             
GGGAATCGCAAGGCACTGTAATTACCTTGGGGACTTGTTGTTGGCACTGTCCTTTAGTTTACCTTGTGGGATAAGgtaattcct--------aaatcatactgtgttgac--atggttacatattcacaattttcatttt--gaatgttctcttttttttctactt-tttgcag---------------------------------------------------------------------------------------------

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|164133789|gb|ES000161.1|ES000161
EST:     CGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAG                         TTCTCCGGTTCCATATTTCTACCCGATATACCTTCTGATACTATTGATATG
genomic: CGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaacttctt ... gtattctcagTTCTCCGGTTCCATATTTCTACCCGATATACCTTCTGATACTATTGATATG
EST: gi|164014903|gb|ES185931.1|ES185931
EST:     CTTCAGTTTGCCATGTGGAATAAG                         TTCTCCGGTTCCATATTTCTACCCGATATACCTTCTGATACTATTGATATG
genomic: CTTCAGTTTGCCATGTGGAATAAGgtaacttctt ... gtattctcagTTCTCCGGTTCCATATTTCTACCCGATATACCTTCTGATACTATTGATATG
EST: gi|86080366|gb|DR376123.1|DR376123
EST:     CTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAG                         TTCTCCGGTTCCATATTTCTACCCGATATACCTTCTGATACTATTGATATG
genomic: CTTGGCGACTTGATGCTTGCTCTGTCCTTCAGTTTGCCATGTGGAATAAGgtaacttctt ... gtattctcagTTCTCCGGTTCCATATTTCTACCCGATATACCTTCTGATACTATTGATATG