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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAAGTATCTTTGATGCTAATGCTGGGATTGGATTAAGCAAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAGgtaacagttagtctctctcatttctttaccatcacatttaccatttgacaatacccaaagactaaaatatgcgtgggtcttgtaatgttacag

Basic information

species Arabidopsis thaliana
transcript AT1G16300.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G16300.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 5'ss of exon 13
GTCAAGTATCTTTGATGCTAATGCTGGGATTGGATTAAGCAAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAGgtaacagt---tagtctctctcatttctttaccatcacatttaccatttgacaatacccaaagactaaaatatgcgtgggtcttgtaatgttacag
|||||| ||||||||||| || ||||| |||||| | |||   ||||||||||| ||||| || |||||||||||||| ||||| ||||||| |  ||   || |  |  | |     ||| |    ||| |    ||  | | |   | |       |||     ||   | |    |||| |||
GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTTGTGTCATGGTATGACAACGAGTGGGGCTACAGgtgagtgtctatatttccattaaggggcttaactcttcatctttttttcca-attgttctattgtcctaatgattctgttccattctttgtttcag

upper sequence: AT1G16300.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G104632_T01 (Zea mays), 5'ss of exon 13
GTCAAGTATCTTTGATGCTAATGCTGGGATTGGATTAAGCAAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAGgtaacagttagtctctctcatttctttaccatcacatttaccatttgacaatacccaaag-actaaaat-atgcgtgggtcttgtaatgttacag
|||||| ||||||||||| || ||||| |||||| | |||   ||||||||||| || || || |||||||||||||| ||||| ||||||||  |||| |   || |  |||| || |  | |  | |   |    |||    |||     |||| || ||  ||  |  |||  |        
GTCAAGCATCTTTGATGCCAAGGCTGGTATTGGACTGAGCTCTTCCTTCATGAAGCTCGTGTCTTGGTATGACAACGAGTGGGGCTACAGgtaggagttcgctacttt-gtttcgttgc-gttatttgttgaagggtacaccttccacgctgctaagatcatttgtttgctttgacag-------

upper sequence: AT1G16300.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G051004_T01 (Zea mays), 5'ss of exon 13
GTCAAGTATCTTTGATGCTAATGCTGGGATTGGATTAAGCAAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAGgtaacagttagt---ctctctcatttctttacc-atcacatttaccatttgacaatacccaaagactaaaatatgcgtgggtcttgta-atgttacag--
|||||| ||||||||||| || ||||| || ||| | |||   || |||||||| ||||| || |||||||||||||| ||||| ||||||||| |||| ||   || | | ||| | | |    ||  | | |    ||    | ||| || | ||          |      |  | |||     |  
GTCAAGCATCTTTGATGCCAAGGCTGGTATCGGACTGAGCTCTTCTTTCATGAAGCTTGTGTCTTGGTATGACAACGAGTGGGGCTACAGgtaagagtttgttacctatttaattgcatcatttgtcgaagtcaaaccttctacacacctaaggccttgttcggttattcccaatacacatggattggat

upper sequence: AT1G16300.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv19s0085g00600.t01 (Vitis vinifera), 5'ss of exon 13
GTCAAGTATCTTTGATGCTAATGCTGGGATTGGATTAAGCAAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAGgtaacagttagtctctctcatttctttaccatcacatttaccatttgacaatacccaaagactaaaatatgcgtgggtcttgtaatgttacag---------------------------
||||||||| |||||||| || || ||||| ||  | ||    ||||||||||| || ||  | |||||||||||||||||||| |||||||| ||    | ||||||| | |||||  || ||||   | |||    |||  | || ||  |  |    | |  | |  ||| ||| ||||                            
GTCAAGTATATTTGATGCAAAGGCCGGGATAGGGCTGAGTGCTTCCTTCATGAAGCTCGTTGCATGGTATGACAACGAATGGGGATACAGgta-caacacggctctctc-tctctttctca-cacacacagcat---gcaagcctcagagcttccag---gtggtgctaatgtgatgatacataatggttattttcggtttttcttacag

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|19741929|gb|AU227282.1|AU227282
EST:     AAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAG                         CAACCGAGTCCTTGACCTGATAGAACACATGGCGTTAGTTGCAGCCAGCCG
genomic: AAGTCCTTCATGAAACTTGTCTCCTGGTATGACAACGAATGGGGTTACAGgtaacagtta ... aatgttacagCAACCGAGTCCTTGACCTGATAGAACACATGGCGTTAGTTGCAGCCAGCCG