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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaagaaccaattcataggaactttgagtgatcatcatttcggaactagtttgatttggattctcgtttttgattgtgcatgttgtttgtattag

Basic information

species Arabidopsis thaliana
transcript AT3G25980.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G25980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os04g40940.2 (Oryza sativa), 5'ss of exon 3
TCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaagaaccaattcataggaactttgagtgatcatcatttcggaactagtttgatttggattctcgtttttgattgtgcatgttgtttgtattag------------------------------------
   | ||||||||| || |||||||||||||||||||| || || || ||| | ||||| || ||  |  | || ||| | || || || || ||  ||||||||  ||| | |  |  | || |   |  |||   || | |   |  |    | ||   || |             ||  |  |  | ||| |                                    
ATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGGTCGCCTCCTGCATCACCTACCTCCCCTGCCTCGACGAGCCATgtaagcgccattac-caccacctctacttcttcagtgtt-cagtgttcatcgcctctgctctcccccccaattcctcccagctcatccgcattcgtcgattgattgattgattgattgattgattttgcag

upper sequence: AT3G25980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G047143_T03 (Zea mays), 5'ss of exon 5
TCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaag------aaccaattcataggaactttgagtgat-----catcatttcggaactagtttgatttggattctcgtttttgattgtgcatgttgtttgtattag-------------------
   | ||||||||| || |||||||||||||||||||| || || || ||| | ||| | || ||  |  | || ||| | || || || || ||  ||||||||      ||||       ||   |||   ||  |     | || ||| ||||   |           |   |   |   |  |||  ||    | || |                      
ATCAAGGAGAAGAGCGACAAGGAGATCATGAGGGAGATCCAGGCCATCATGCGCCAGATCGCGTCTTGCATCACCTACCTCCCCTGCCTCGACGAGCCATgtaagggccgcaaccggcatccagtcgcttcctgtattttcgccttccttttggaaaccggcgctgcaaagtctgcaactgcaaccgtggctgactctggtctcctctcctcccgaactggtcag

upper sequence: AT3G25980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G37380.1 (Glycine max), 5'ss of exon 5
TCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaagaaccaa------ttcataggaactttg-----agtgatcatcatttcggaactagtttgatttggattctcgtttttgattgtgcatgttgtttgtattag-------------------------------
|||||||| |||||||| |||||||||||||| ||||| ||||| |||||||| ||| ||||||||||| | ||||| ||||| || || |||||| | |||||||||||       | | || || | |       |||  ||||    | | | ||  | |   |    || || | | | |||     |    ||  | |||                                
TCGAGGGAAAAGAGTGACAAGGAGATCATGAGAGAGATACAAGCCATTATGAGGCAGATTGCTTCAAGTATCACTTATTTGCCATGCCTGGATGAACCTTgtaagaaccacgtgctttgcctatgatcatgagtaacagttgtcatgcccttgcatctcatctctgtctacttttcatctcttattcctt-taacattcattttatctcccagctaagcatatccatcttgtttcag

upper sequence: AT3G25980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G01350.1 (Glycine max), 5'ss of exon 5
TCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaagaacca----attcataggaactttgagtgatcatcatttcggaactagtttgatttggattctcgt---ttttgattgtgcatgttgtttgtattag------------------------------------------
|| ||||| |||||||| |||||||||||||| ||||| ||||| |||||||| ||| ||||||||||| | ||||| ||||| || || |||||| | |||||| ||||     ||         |     ||||||| |    |        ||   |  |  ||||||   |||    | | ||| || ||| | | |                                           
TCAAGGGAAAAGAGTGACAAGGAGATCATGAGAGAGATACAAGCGATTATGAGGCAGATTGCTTCAAGTATCACTTATTTGCCATGCCTGGATGAACCTTgtaaggaccatgtgttttgccaatgatcattatgatcatgagaaagagttgtcattccctgagcatctcgtctctttctgcttttcatcttatttatttaacgtttattttatctcccagctaagcatatctatcttgtgtcag

upper sequence: AT3G25980.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv01s0010g02430.t01 (Vitis vinifera), 5'ss of exon 5
TCGAGGGAGAAGAGTGATAAGGAGATCATGAGGGAGATTCAAGCTATTATGAGACAGGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaagaac---caattcataggaactttgagtgatcatcatttcggaactagtttgatttggattctcgtttttgattgtgcatgttgtttgtattag
|| |||||||||||||| || ||||| ||||| ||||| ||||| || ||| ||||| ||||||| ||  | ||||| ||||| ||  | |||||| | |||||   |   | |   |    |  |||    |    |    | |  | |  |     | | ||   |  || |||| ||   |||  ||        
TCAAGGGAGAAGAGTGACAAAGAGATTATGAGAGAGATACAAGCAATCATGCGACAGATTGCTTCCAGCATCACTTATTTGCCATGCATCGATGAACCCTgtaatgccatgccaccaactacacttttttccggatgttgggtggtgatttttactgatggaatctccacttgtgatggt--ttgtccttcag-----

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|164107819|gb|ES087619.1|ES087619
EST:     GGTTGCTTCAAGCGTTACTTACTTGCCTTGTCTTGATGAAACAT                         GTGTGTTTGATGTATTGGCGTATACGGATACTGATGTGGCTGTTCCATTCA
genomic: GGTTGCTTCAAGTGTTACTTACTTGCCTTGTCTTGATGAAACATgtaagaacca ... tttgtattagGTGTGTTTGATGTATTGGCGTATACGGATACTGATGTGGCTGTTCCATTCA