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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGATACATCCTCAAGGATTTCAAAGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAAgtatgatttcacttttcttaaacttcatgtaacctaaggaatgagataggctgattcctactactgcttacactttagtgatccaacgtctgacagtattgttttgaatattgaattag

Basic information

species Arabidopsis thaliana
transcript AT3G04460.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G04460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os10g32960.1 (Oryza sativa), 5'ss of exon 6
ATGGATACATCCTCAAGGATTTCAAAGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAAgtatgatttcacttttcttaaacttcatgtaacctaaggaatgaga--taggctgattcctactactgcttacactttagtgatccaacgtctgacagtattgttttgaatattgaattag
|||||  |||| || ||| | ||||  ||  | ||||  || | ||||||||||||||||||||||||| | || |||  |    | || | | |    |||| ||    |     | |    |  |    ||  || |   || || ||  || |  |  ||  | |  |  |   |                  
ATGGAATCATCTTCTAGGGTATCAAGAATCAGAAATCGAGAACTTGAGAGACTTCGTGGTCCTCCATGGCTGAAGgtagtaaagga-ttgtatcactactcatatagtggatttgctcaagtttgagtcatttaataatggcgcata-acactaatattttaatat-tatccctgcag------------------

upper sequence: AT3G04460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G41050.1 (Glycine max), 5'ss of exon 5
ATGGATACATCCTCAAGGATTTCAAAGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAAgtatga-----------------------tttcacttttcttaaacttcatgtaacctaaggaatgagataggctgattcctactactgcttacactttagtgatccaacgtctgacagtattgttttgaatat-tgaattag--------------------------------------------
|||||||| || || |||||||||||||| || || | ||| |||||||| |||||||| |||| |||||| || |||||                        ||| |  ||||    | ||    | |  |||| |   |   | |  | |   || |    |||    | |    ||    | |    ||  ||  |  ||| | | |||||||                                             
ATGGATACCTCTTCTAGGATTTCAAAGATGCGTAACCGTGAACGTGAGAGGCTTCGTGGGCCTCAATGGTTGAAGgtatgtgatttttttatcagtataatgacttttatctttccctgattttccatgaattaagaagaaactgaagaagttagttagttaaactttttttctgtatatttcgcatgaagcatgataatgctgactgtatgaattaatgttctttttatgctccattttaaccacatgattcgaatctcag

upper sequence: AT3G04460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA19G43700.1 (Glycine max), 5'ss of exon 5
ATGGATACATCCTCAAGGATTTCAAAGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAAgtat--gatttcacttttctta----aacttcatgtaacctaaggaatgagataggctgattcctactactgcttacactttagtgatccaacgtctgacagtattgttttgaatattgaattag
|||||||| || || || ||||||||||| || || | ||| ||||||||||||||||| |||| |||||| || ||||  |||||   | |   ||     |||| || |  ||           | |  ||||     | ||    | | ||||||  ||  |      ||                           
ATGGATACCTCTTCTAGAATTTCAAAGATGCGTAACCGTGAACGTGAGAGACTTCGTGGGCCTCAATGGTTGAAGgtatgtgattttcttatcagtataatgactttatctttccctgaattaagaagaaactgaagaa-attagatataatactttatagacactgttcatgttt------------------------

upper sequence: AT3G04460.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv14s0036g01130.t01 (Vitis vinifera), 5'ss of exon 6
ATGGATACATCCTCAAGGATTTCAAAGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAAgtatgatttcactttt-cttaaacttcatgtaacctaaggaatgagataggctgattcctactactgctta--cactttagtgatccaacgtctgacagtattgttttgaatattgaattag
|||||||| || || ||||||||||||||  ||| || ||| ||||| || |||||||| ||||||||||| || |||     ||   ||| |||||| || |  | |  |      ||  ||   ||| |    | ||   || |  || ||  |  |  | |  || ||    |                     
ATGGATACTTCTTCTAGGATTTCAAAGATAAGGAGTCGTGAACGTGATAGGCTTCGTGGCCCTCCATGGTTGAAGgtacatcatcttatttgcttaaatttgactttaattctcttttgt-attcactggtataaaataagactaattcaattgtgcaactccatctcggatgaca---------------------

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|19877662|gb|AU238493.1|AU238493
EST:     AGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAA                         ACGGTGCAAGGGGCACTTTCTTAGCTGCTCATATGCTGTGCTTGACTATGC
genomic: AGATTCGGAATCATGAGCGTGAGAGACTTCGTGGTCCTCCATGGTTAAAAgtatgatttc ... attgaattagACGGTGCAAGGGGCACTT-CTTAGCTGCTCATATGCTGTGCTTGACTATGC