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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtggtagtcttaccatggacgactcttgttttcctcag

Basic information

species Arabidopsis thaliana
transcript AT3G13580.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os04g51630.3 (Oryza sativa), 5'ss of exon 4
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttattta-acctcattagtaagtggtagtcttaccatggacgactcttgttttcctcag-------
|| || ||||| |||||||||||||||||||| || |||||||||||||| ||| | ||||| || |||||  | ||||||||  |  |  | |  ||||||| | |  ||    | |  ||| ||  |  |||       |  || | | |  ||   |  || ||||||| ||          
ATCTTTAATGGAGTGTTCTTGAAGGTCAACAAAGCCACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtaagctac--cataattacatt-cgagcctaatatattatatatatgcaccatcttgctattttattttga--attaccatctgttgttttactagaaatgtga

upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os08g13690.1 (Oryza sativa), 5'ss of exon 5
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtggtagtcttaccatggacgactcttgttttcctcag------------
|| ||||||||||| ||| | ||||| ||||||||||||||||||||||| ||| | ||||| || |||||  | ||||||||    |  ||    |||  |        | | |||   |||||| |     || | | || | |   |   |  |||   | |  |  |||   |            
ATCTTCAATGGTGTCTTCCTCAAGGTTAACAAGGCAACCATTAACATGCTGCGCAGGGTTGAGCCATATGTTGCATATGGgtatg--ttatcaattttagctgctg---ttctgtttatatatttagctgtgctaattattgcttgc--tgttacagac--ttgtaatcctccatcgcaaattatcaat

upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM5G868433_T02 (Zea mays), 5'ss of exon 5
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtggtagt--cttaccatggacgactcttgttttcctcag--
|| |||||||| |||||| |||| ||||||||||| |||||||||||||||||| | ||||| || |||||  | ||||||||    |||   |||| |  |    |   | |   |||||||||      |||  | | | | |||   |        |    || |  | |   | |  
ATATTCAATGGCGTGTTCCTGAAAGTCAACAAGGCTACCATTAACATGCTTCGCAGGGTTGAGCCTTATGTTGCATATGGgtaatt-tctctttgctgatttaattattgtcttgcttcttattttggtgtatttttcactcgaagtacgtagttgaaaagagatcatactgtgacctgtt

upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G094051_T03 (Zea mays), 5'ss of exon 5
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgt--gctta--catttcaaaactttcttttcttatttaacctcattagtaagtggtagtcttaccatggacgactcttgttttcctcag
|| ||||||||||||||| | || ||||||||||| || ||||||||||| ||| | ||||| || |||||  | ||||||||    |  | |     |||    || |    |    | || | || || ||||  | | || |       | |     ||  |  || |||   ||   
ATCTTCAATGGTGTGTTCCTCAAAGTCAACAAGGCGACTATTAACATGCTACGCAGGGTTGAGCCATATGTTGCATATGGgtaagttttctagctgatttaattcttccgttgccgcttattttgatatatcctccattgaaaatacagagttgaaagcagatcatact-gttgcacttgt

upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G100225_T01 (Zea mays), 5'ss of exon 4
--------------------ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtg-gtagtcttaccatggacgactct-tgttttcctcag--
                    || ||||| ||||| ||| | ||||| ||||||||||||||||||||||| ||| | || || || |||||  | || |||||   || |      |||     |||    | | |||  |||  | || || |    | || |  || |  | |  || |   || |   | ||| |   
AGCTCCTGCGATTGAGGCAGATCTTCAACGGTGTCTTCCTCAAGGTTAACAAGGCAACCATTAACATGCTGCGCAGGGTGGAGCCATATGTTGCGTACGGgtaagtctgtataaattta-gcagcaatgagtccattttgtatcaatccccacttacgaatgtgatgtttcccaacagatgttcctatcgctcccttaatt

upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ23123 (Selaginella moellendorffii), 5'ss of exon 4
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtggtagtcttaccatggacgactcttgttttcctcag
|| |||||||| |||||| ||||||| |||||||||||||| ||||||||     | || || || || || || || |||||    |||| ||  |   |  |||  |      ||||| |   || |||   ||                                         
ATCTTCAATGGGGTGTTCATGAAGGTGAACAAGGCAACCATGAACATGCTCAAGAGAGTCGAGCCGTACGTGACTTACGGgtaagtttctttgttttccaagatcaccatcacgatttctaagcaaaactctccag-----------------------------------------

upper sequence: AT3G13580.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ20182 (Selaginella moellendorffii), 5'ss of exon 4
ATTTTCAATGGTGTGTTCTTGAAGGTCAACAAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctcttcgtgcttacatttcaaaactttcttttcttatttaacctcattagtaagtggtagtcttaccatggacgactcttgttttcctcag
|| |||||||| |||||| ||||||| |||||||||||||| ||||||||     | || || || || || || || |||||    |||| ||  |   |  |||  |      ||||| |   || |||   ||                                         
ATCTTCAATGGGGTGTTCATGAAGGTGAACAAGGCAACCATGAACATGCTCAAGAGAGTCGAGCCGTACGTGACTTACGGgtaggtttctttgttttccaagatcaccatcacgatttctaagcaaaactctccag-----------------------------------------

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|164001920|gb|ES209552.1|ES209552
EST:     GGCAACCTTATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGG                         ATACCCGAACTTAAAAAGTGTGAAGGAATTGATTTACA
genomic: GGCAACC--ATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctct ... ttttcctcagATACCCGAACTTAAAAAGTGTGAAGGAATTGATTTACA
EST: gi|164022297|gb|ES212298.1|ES212298
EST:     AAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGG                         ATACC-GAACTTAAAAAGTGTGAAGGAATTGATTTACA
genomic: AAGGCAACCATTAACATGCTTCGCCGTGTTGAACCCTATGTAACCTATGGgtacccctct ... ttttcctcagATACCCGAACTTAAAAAGTGTGAAGGAATTGATTTACA