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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcctttcgtttttaattacttctctaagcttaaggttttcttctgcttag

Basic information

species Arabidopsis thaliana
transcript AT3G13470.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 5'ss of exon 3
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcctttcgt---ttttaattacttctctaagcttaaggttttcttctgcttag------------------------------------------------------------------------------------------------------
 ||||| ||||| ||||| ||||||||  | |||||||| |||||||||||||||||||| || | |||||| ||||||||||| || ||||| | |||||||||  |  ||| ||      |||   |  ||||| | |  |    |   || | | || |||  | |  |||||||      |                                                                                                        
CGTTGGAGTCACCCTTGGTCCAAAAGGACGGAATGTTGTCCTTGAGAGCAAGTATGGATCACCTAAAATTGTCAATGATGGTGTTACCGTTGCAAAGGAGgtatgccacgtatagta-----aactgttcgtgttcttatgatgcaatcctatcattgct-taaattcagagttttctgaaaaatgactgaacatttggcataaactgtttgttttcttatgatgcaatcctatcatagcttaaattcagagttttctgaaaaatgagtgaacatttggcatgcaccag

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 5'ss of exon 3
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaatta-tgttcctttcgtttttaattacttctctaagcttaaggttttcttctgcttag-----------------
|||||| || ||||| |||||||| || || ||||||||| | |||||||||||||| ||||| || ||||| ||||||||||| || ||||| || |||||||  | |  | ||| | ||    ||| ||   ||   ||   ||  ||||   |   |     || | | | ||||  |  |                  
TGTTGGAGTTACACTGGGACCAAAGGGAAGGAATGTTGTTTTGGAGAGCAAGTATGGGTCCCCTAGGATTGTCAATGATGGTGTTACAGTTGCAAGAGAGgtat--attacagtgtttattgcgtcaaatagcattgaatttccttacaatttgcttgtttgctgtatgctatacttccacagaaaaaaaatgtttgttttg

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 3
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcct-ttcgtttttaattacttctctaagcttaaggttttcttctgcttag------------------------------------
 || || || || ||||||||||| ||| ||||||| || || || ||||||||||| || || | |||||| ||||||||||||||||| || | ||||||    |  | | |      ||| |    | ||||| |  ||||  |  |    | | ||   || |    ||    ||||  ||                                    
CGTCGGGGTTACTCTTGGACCAAAGGGGCGAAATGTAGTCCTCGAAAGCAAGTATGGCTCACCTAAAATTGTCAATGATGGTGTCACTGTGGCAAAGGAGgtgcacatctgactacaaacttaccatcgtttgttcttgctcgtactgcaaccataccctgctctaacttcttgtggctgccgagtttcctcatatgttctgggctgtggccatgcaccag

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G133698_T03 (Zea mays), 5'ss of exon 3
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgta---tgaaat-ttattgtctgtttaacca-attatgttcctttcgtttttaattactt--ctctaagcttaaggttttcttctgcttag--------------------------------------------------------
                         || || ||||||||| | |||||||||||||| || || | ||||||||| |||||||| || ||||| || ||||||   || ||| |||   |   | ||   | | | || |   |   |  | |||||| |  |  |     ||   |||||| |   |                                                           
------------------------GGGAAGGAATGTTGTTTTGGAGAGCAAGTATGGTTCTCCTAAAATTGTTAACGATGGTGTTACAGTTGCCAGAGAGGTACAGTGCAATGTTACCATGGTTgtacttagaatttgattgctagctcgtaaattacataacgttgtatatatttttttctccaattcttgtcatacatgttttacaggtcatattcttataacccatgtaatgcatatactttag

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA08G18760.2 (Glycine max), 5'ss of exon 2
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcctttcgtttttaattacttctctaagcttaaggttttcttctgct-tag-------------------
 ||||| ||||| ||||| || || || |||||||||||||| |||||||||||||| || || | ||| ||||| || ||||||||||| || |  |||||     | || || | | |  |     |  |  |  | |  |  ||  ||  || |   |  |||| |        |  | ||                    
GGTTGGGGTCACGCTTGGTCCCAAGGGAAGAAATGTTGTTCTCGAGAGCAAGTATGGCTCGCCGAAAATCGTTAACGACGGTGTCACTGTCGCTAAAGAGgtg----actttttttttttgaattttgtcgtactattgttatggttgtttcttttttcgaatttaaagcaggtaattattgtaaaaaccgacaaacttatcat

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 3
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatg---aaatttattg--tctgtttaa---ccaattatgttcctttcgttttta------attacttctctaagcttaaggttttcttctgcttag--
 || || || || ||||| |||||||| || |||||||| || |||||||||||||| ||||||| |||||||||||||||||| ||||| || |  ||||||||   |  | ||||   | | |||||   | | || || |  |||   ||  |      |  |   |   | |||  | ||||| |     |     
AGTGGGAGTTACTCTTGGTCCAAAAGGCAGGAATGTTGTCCTAGAGAGCAAGTATGGCTCCCCAAAAATTGTTAATGATGGTGTAACTGTGGCCAAAGAGgtatgttaagttctattaattttttttaagttctagttttgcttttttaagttgaatatggaacaaagccagcaggctataagttttgtcaatttctctt

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S14_298V6.1 (Physcomitrella patens), 5'ss of exon 2
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcctttcgtt-tttaattacttctctaagcttaaggttttcttctgcttag----------------------------------------------------------------------------------------------------------
||||||||||||  | || || || ||  |||| || || ||||||||||||||||| || || | |||||| ||||| ||||||||||| || | |||||| |     ||     || | ||          ||  ||  ||| |||| ||  || | |  | | |  |   | || |  ||                                                                                                            
TGTTGGTGTCACTTTGGGGCCCAAGGGCCGAAACGTCGTGCTTGAGAGCAAGTATGGCTCACCCAAAATTGTGAATGACGGTGTCACTGTGGCCAAGGAGgt-tagggcttgcatcctctctatgagcccggatttattatgttgtttacttggtttttttggataagcgcgattttttttttgaggggggcggggtgtagaatcttgggataaggtttcgttctttcttgaattagatgcgcatgagtttgagcttttcaattaacgcgctgaatctcggaactcaacag

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ36935 (Selaginella moellendorffii), 5'ss of exon 2
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcctttcgtttttaattacttctctaagcttaaggttttcttctgcttag
 || || || ||  | || || || || ||||| || || || ||||||||||||||||| ||||  ||||| || ||||| ||||||||||| |  |||||| |||    |   |    |    | |  | ||   ||  ||||||  |   |  |   ||                      
AGTGGGAGTTACTTTGGGTCCCAAGGGAAGAAACGTGGTGCTCGAGAGCAAGTATGGATCTCCAAAGATTGTCAACGATGGAGTCACTGTTGCCAAAGAGgtaggaaggaaaagataaaatgcggctacaaagtcttttgtgtttttgctctttgtttgcag----------------------

upper sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ33580 (Selaginella moellendorffii), 5'ss of exon 2
TGTTGGTGTCACACTTGGACCAAAAGGGAGAAATGTTGTTCTTGAGAGCAAGTATGGATCCCCAAGAATTGTTAATGATGGTGTCACTGTTGCGAGGGAGgtatgaaatttattgtctgtttaaccaattatgttcctttcgtttttaattacttctctaagcttaaggttttcttctgcttag
 || || || ||  | || || || || ||||| || || || ||||||||||||||||| ||||  ||||| || ||||| ||||||||||| |  ||||||        | |     |    | |   | ||   ||  | ||||  |   |  |   ||                      
AGTGGGAGTTACTTTGGGTCCCAAGGGAAGAAACGTGGTGCTCGAGAGCAAGTATGGATCTCCAAAGATTGTCAACGATGGAGTCACTGTTGCCAAAGAGgtagagggaaaagttaaaatgcggcta-caaagtcttttgtgcttttgctctttgtttgcag----------------------

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|125135678|gb|EL175868.1|EL175868
EST:     TATGGATCCCCAAGAATTGTTTAATTGATGGTGTCACTGTTGCGAGGGAG                         GTCGAGTTGGAGGACCCGGTTGAGAACATTGGTGCAAAGCTTGTAAGG
genomic: TATGGATCCCCAAGAATTG-TTAA-TGATGGTGTCACTGTTGCGAGGGAGgtatgaaatt ... ttctgcttagGTCGAGTTGGAGGACCCGGTTGAGAACATTGGTGCAAAGCTTGTAAGG