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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagttgtggatacattgttacaacactcgcaaatctctctactggtccaacgcaatcaatttagcaatgaacattgtcacttttcag

Basic information

species Arabidopsis thaliana
transcript AT1G80350.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G017305_T02 (Zea mays), 5'ss of exon 3
GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagt--tgtggatacattgttacaaca-ctcgcaa-atctctctactggtccaacgcaatcaatttag----caatgaacattgtcacttt-tcag--
| ||||| |||| || ||||| ||||| ||||||||||||||||||||| | ||||| |||||||| || ||||| ||||||||| ||||  ||  ||  ||||  ||  || | || || |    |||| | | ||  |||       ||| ||| |       ||||||   | | ||| ||||  
GCGGAGGCTGGAGAAGCGTATTTATATTCCACTTCCAGATTTTGAAAGTAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtattggagatatctttctagatcatcttgtgttatctttatcctcttccctttgtttcattttgggtctttgtgaacacattgattttatcaggc

upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G054715_T07 (Zea mays), 5'ss of exon 1
------------GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagt--tgtggatacattgttacaaca-ctcgcaa-atctctctactggtccaacgcaatcaattt-agcaat---gaacattgtcacttt-tcag--
            | ||||| |||| || ||||| |||||||||||||||||||| |||||  | ||||| |||||||| || ||||| ||||||||| ||||  ||  ||  ||||  ||  |  | || ||||  | |||| | | |   | |       ||| ||| ||  ||   |||||   | | ||| ||||  
TAAATTGCCCAGGCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttggagatatctttctggatcatctcgtgatatctttgtcccctttcctttgtttcattttgagtcattgcgaacaaattgattttatcagac

upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G054715_T01 (Zea mays), 5'ss of exon 6
GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagt--tgtggatacattgttacaaca-ctcgcaa-atctctctactggtccaacgcaatcaattt-agcaat---gaacattgtcacttt-tcag--
| ||||| |||| || ||||| |||||||||||||||||||| |||||  | ||||| |||||||| || ||||| ||||||||| ||||  ||  ||  ||||  ||  |  | || ||||  | |||| | | |   | |       ||| ||| ||  ||   |||||   | | ||| ||||  
GCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttggagatatctttctggatcatctcgtgatatctttgtcccctttcctttgtttcattttgagtcattgcgaacaaattgattttatcagac

upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G054715_T03 (Zea mays), 5'ss of exon 5
GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttag--ttgtggatacattgttacaaca-ctcgcaa-atctctctactggtccaacgcaatcaattt-agcaat---gaacattgtcacttt-tcag
| ||||| |||| || ||||| |||||||||||||||||||| |||||  | ||||| |||||||| || ||||| ||||||||| ||||  |  |||  ||||  ||  |  | || ||||  | |||| | | |   | |       ||| ||| ||  ||   |||||   | | ||| ||||
GCGGAGGCTGGAGAAGCGTATTTATATCCCACTTCCAGATTTCGAAAGCAGAAAGGCACTTATCAACATTAATCTTAGAACAGTTCAGgtatgtgttggagatatctttctggatcatctcgtgatatctttgtcccctttcctttgtttcattttgagtcattgcgaacaaattgattttatcag

upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA08G22210.1 (Glycine max), 5'ss of exon 6
GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagttgtgg-------------atacattgttacaacactcgcaaatctctctactggtccaacgcaatcaatttagcaatgaacattgtcacttttcag
||| ||| ||||||| |||||||||||||| |||||| ||||||| |||||||| |  || |||   |||||| |||  || |||||||  |||||||              ||| |   ||   || ||  ||||| |   ||   |      | ||| ||||||  |    | ||||| | |      
GAGAAGGCTGGAAAAGCGTATATATATCCCTCTTCCAAATTTTGAGAGTCGTAAAGAACTGATCCGGATCAATTTGAAGACTGTTGAGgcaagttgtgttgttaatttggccatataggattttgacccttacaaattttgttatgtgaaagctgtaattaatttataatgtgaaattgtgaataaca--

upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA07G03820.1 (Glycine max), 5'ss of exon 6
GAGGAGGTTGGAAAAACGTATATATATCCCACTTCCAGATTTTGAAAGTCGTAAGGCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagttgtgg-------------atacattgttacaacactcgcaaatctctctactggtccaacgcaatcaatttagcaatgaacattgtcacttttcag
||| ||| ||||||| |||||||||||||| |||||| ||||||| |||||||| |  || |||   |||||| |||  || |||||||  |||||||              ||| |   ||   || || |||| | |   ||   |      |  ||  |||||  | |||| ||||| | |      
GAGAAGGCTGGAAAAGCGTATATATATCCCTCTTCCAAATTTTGAGAGTCGTAAAGAGCTGATCCGAATCAATTTGAAGACTGTTGAGgcaagttgtgctgttaatttggtcatataggattttgacccttgcaatttttgttatgcgaaagctgtgattgatttataagtgaa-attgtgaataacat-

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|125181976|gb|EL197794.1|EL197794
EST:     GCTCTTATCAATATCAATCTGAGAACAGTTGAG                         GTGGCGAGTGATGTTAACATTGAAGATGTGGCCCGGAGAACGGAAGGGTAC
genomic: GCTCTTATCAATATCAATCTGAGAACAGTTGAGgttagttgtg ... cacttttcagGTGGCGAGTGATGTTAACATTGAAGATGTGGCCCGGAGAACGGAAGGGTAC