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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGATGGCAGTTGGATCTCACGCATTGCGGCTCTACTTGTGGGCGAAGATCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATGgtgaatgaatgtttaagcaaatcctttacctgaatctttcaactatatacttatttctaacataattttgcaatatgctttgtaaatgcag

Basic information

species Arabidopsis thaliana
transcript AT4G31080.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G31080.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G07930.1 (Glycine max), 5'ss of exon 5
CATGATGGCAGTTGGATCTCACGCATTGCGGCTCTACTTGTGGGCGAAGATCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATGgtgaatgaatgtttaagcaaatcctttacctgaatctttcaactatatacttatttct-----aacataattttgcaa----tatgctttgtaaatgcag--------------------------------------------------------------------
|| |||||  | |||||  |||| ||||| ||| |||||||||||||||| || ||||| |||||||||||||| || || |||||   |||||| |||||| |  |   | |  |    ||| ||||     ||| |     | |  | ||||| |      || || ||| | |||    |||  | | |   | ||                                                                     
CAAGATGGAGGATGGATTGCACGAATTGCAGCTTTACTTGTGGGCGAAGACCCAACACAGTCATATGCGCTCATATGCGGTAACTGCTATATGCATAATGgtaagggg--gctagatttgatcttttat---gatcatgtccttttgcatttattgcagaataaagatgattgtacaagtgctattttgtttttttacaatagaccatgttaatagatgaatacaacagtaaaaaaatgtgtattcttatctgcttattttctttcag

upper sequence: AT4G31080.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv00s0432g00020.t01 (Vitis vinifera), 5'ss of exon 2
CATGATGGCAGTTGGATCTCACGCATTGCGGCTCTACTTGTGGGCGAAGATCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATGgtgaatgaa------------tgtttaagcaaatcctttacctgaatctttcaactatatacttatttctaacataattttgcaatatgctttgtaaatgcag-----------------------------------------------------------
||||||||  | |||||  | || ||||| || ||||||||||| || ||||| ||| | || ||||| || || ||||||||||||| |||||| |||||| | || |            |  |||                                                                                                                                       
CATGATGGGGGATGGATTGCTCGAATTGCTGCACTACTTGTGGGGGAGGATCCAACAGAGTCTTATGCACTTATATGTGGAAACTGTCATATGCATAATGgtaagtggagtgaggacctcatccttannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaagtagttttgtcctgtttttgtttttgtgcag

upper sequence: AT4G31080.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv00s0215g00090.t01 (Vitis vinifera), 5'ss of exon 5
CATGATGGCAGTTGGATCTCACGCATTGCGGCTCTACTTGTGGGCGAAGATCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATGgtgaatgaatgtttaagcaaatcctttacctgaatctttcaactata----tacttatttctaacataa---ttttgcaatatgctttgtaaatgcag--
||||||||  | |||||  | || ||||| || ||||||||||| || ||||| ||| | || ||||| || || ||||||||||||| |||||| |||||| | || |      | |  ||||||        | ||||  ||  |    ||||| | |  | ||| |   |||| |   |||     ||     |   
CATGATGGGGGATGGATTGCTCGAATTGCTGCACTACTTGTGGGGGAGGATCCAACAGAGTCTTATGCACTTATATGTGGAAACTGTCATATGCATAATGgtaagtggagtgaggacctcatccttacaaaatgtatttctgcttcaggattacttttgttcatcattacttttttcctccatgtcccctactgttaatt

upper sequence: AT4G31080.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0033g01150.t01 (Vitis vinifera), 5'ss of exon 6
CATGATGGCAGTTGGATCTCACGCATTGCGGCTCTACTTGTGGGCGAAGATCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATGgtgaatgaatgtttaagcaaatcctttacctgaat---ctttcaactatatacttatttctaacataattttgcaatatgctttgtaaatgcag
 |||||||  | |||||  | || ||||| ||  | |||||||| || ||||| ||||| |||||||||||||| || || ||||| | ||||||||||||| | || |    ||  || |||||| |||    |   ||| |||||     |||| || |  ||||  ||          |   |   |||||
TATGATGGGGGATGGATTGCTCGAATTGCAGCATTGCTTGTGGGTGAGGATCCAACACAGTCATATGCGCTCATATGCGGGAACTGCCATATGCACAATGgtaagtggagtagtattcacatccttaacccacctggacttccaact-----cttagttttgtcatatcttcaggggtctttggtttggtgcag

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|124752787|gb|EH842917.1|EH842917
EST:     TCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATG                         GACTTGCTACGGAAAGAGGATTTTGCTTACATTACATACT
genomic: TCCCACACAATCATATGCGCTCATTTGTGGAAACTGTCGTATGCACAATGgtgaatgaat ... gtaaatgcagGACTTGCT-CGGAAAGAGGATTTTGCTTACATTACATACT