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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCTTTGGGACGAGAACAATTTCACAGCAGATGGTATTCAATCTCTGACTAACAATCTCTGTTATACCTATGCGCGGTGCACTCGGTCGGTCTCTATAGgtaaataacaacatttcttcttcttcttcgtgtacccgcaaatatgacgaaaatcagcaaactcatatgttcttttattttctgatgttgtacag

Basic information

species Arabidopsis thaliana
transcript AT5G43810.2
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 20
lower sequence: GLYMA02G00510.1 (Glycine max), 5'ss of exon 20
GTTCTTTGGGACGAGAACAATTTCACAGCAGATGGTATTCAATCTCTGACTAACAATCTCTGTTATACCTATGCGCGGTGCACTCGGTCGGTCTCTATAGgtaaataa----caacatttcttcttcttcttcgtgtacccgcaaatatgacgaaaatcagcaaac--tcatatgttcttttattttctgatgttgtacag
||||| ||||| || ||||| |||||||||||||| ||||| ||| |||| ||||||||||||||||| |||||  |||| || || || || ||| | |||||  |      |  | |   |  | ||  |  | |||||    |  |    ||||| | | ||   | |||  ||    ||  ||     |  | |   
GTTCTGTGGGATGAAAACAACTTCACAGCAGATGGAATTCAGTCTTTGACAAACAATCTCTGTTATACATATGCCAGGTGTACACGCTCCGTATCTGTTGgtaagcatatttgattaatgtgtgctatttattttttacccttgtaactagt-aaaataaactaatgattatactttagcctagattaaacagaggcatga

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 20
lower sequence: GLYMA10G00530.1 (Glycine max), 5'ss of exon 12
GTTCTTTGGGACGAGAACAATTTCACAGCAGATGGTATTCAATCTCTGACTAACAATCTCTGTTATACCTATGCGCGGTGCACTCGGTCGGTCTCTATAGgtaaat-------aacaacatttcttcttcttcttcgtgtacccgcaaata-tgacgaaaatcagcaaactcatatgttcttttattttctgatgttgtacag
||||| ||||| || ||||| |||||||||||||| ||||| ||| |||| ||||||||||||||||| |||||  |||| || || || || ||| | |||||         |  || || |  | ||  | ||  |   |  || | || | |   |||  || |   |  ||     |  |   |  | ||  | ||   
GTTCTGTGGGATGAAAACAACTTCACAGCAGATGGAATTCAGTCTTTGACAAACAATCTCTGTTATACATATGCCAGGTGTACACGCTCTGTATCTGTTGgtaagcccatttgattaatatgtggtatttattttt-tacccttgccactagtaaaagaaactagaatggttttacagcatgattaatgattatactttag--

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 20
lower sequence: GLYMA20G28970.1 (Glycine max), 5'ss of exon 21
GTTCTTTGGGACGAGAACAATTTCACAGCAGATGGTATTCAATCTCTGACTAACAATCTCTGTTATACCTATGCGCGGTGCACTCGGTCGGTCTCTATAGgtaaataa------caac--atttcttcttcttct-tcgtgtacccgcaaatatgacgaaa-atcagcaaactcatatgttcttttattttctgatgttgtacag---------------------------------------------------------------------------------
|| || ||||| || ||||| |||||||||||||| ||||| |||||||| |||||||| |||||||| |||||  |||| || || || || ||  | |||||          |||   || | || || |||  | || |   | ||  ||||||  |  ||   |  || |  | |     ||        ||| | |                                                                                     
GTCCTGTGGGATGAAAACAACTTCACAGCAGATGGAATTCAGTCTCTGACAAACAATCTTTGTTATACATATGCCAGGTGTACGCGCTCAGTATCAGTTGgtaagcctgtgcttcaattaatatgttgtttttcagttgtttggtcccagttatgactcaccatgtccttaccctcaagactagttgaacagctatgctattttaatgacatggttgaacttttaaccctttatacttgtcttggatagtttaaaacttaattgactggaaattgttgttgtgcag

upper sequence: AT5G43810.2 (Arabidopsis thaliana), 5'ss of exon 20
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 5'ss of exon 18
GTTCTTTGGGACGAGAACAATTTCACAGCAGATGGTATTCAATCTCTGACTAACAATCTCTGTTATACCTATGCGCGGTGCACTCGGTCGGTCTCTATAGgtaaataacaacatttcttcttcttcttcgtgtacccgcaaatatgacgaaaatcagcaaactcatatgttcttttattttctgatgttgtacag-------------
||| | ||||| ||||||||||||||||||||||| ||||||||  |||| |||||||| || || || |||||  ||||||| || ||||| ||| | |||||          |  || | |||| |  || |    || ||    |   | |||   || | |  |||||  ||     ||  |   | | |              
GTTTTATGGGATGAGAACAATTTCACAGCAGATGGAATTCAATCCTTGACGAACAATCTTTGCTACACATATGCAAGGTGCACACGATCGGTGTCTGTTGgtaagc-------ctgtttttccttcctaatgaagtttcatatgcatctgcattcaa-gaattaaattgttcccttgaaaactttttcggaaaaaaatgtcaaagatt

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|125141945|gb|EL179446.1|EL179446
EST:     TGCGCGGTGCACTCGGTCGGTCTCTATAG                         TTCCTCCAGCGTATTATGCTCATCTTGCAGCATTTCGAGCACGTTTCTACC
genomic: TGCGCGGTGCACTCGGTCGGTCTCTATAGgtaaataaca ... tgttgtacagTTCCTCCAGCGTATTATGCTCATCTTGCAGCATTTCGAGCACGTTTCTACC
EST: gi|164226000|gb|EL986636.1|EL986636
EST:     GGTCTCTATAG                         TTCCTCCAGCGTATTATGCTCATCTTGCAGCATTTCGAGCACGTTTCTACC
genomic: GGTCTCTATAGgtaaataaca ... tgttgtacagTTCCTCCAGCGTATTATGCTCATCTTGCAGCATTTCGAGCACGTTTCTACC