Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAGgttctgtctatttgtctaactctgtaaagaaacactattatataaaatttcattaaattgttactaagaaactgttacatattttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G03540.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G03540.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 9
GTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAGgttctgt-ctatttgtctaact--ctgtaaagaaacactattatataaaatttcattaaattgttactaa-----gaaactgttacatattttgtag-------------------------------------------------------------------------------------------------------
||| ||||||||||||||| | || ||||||||||| ||| |||||||| | || |||||||| |||||||| ||||||||||||  ||| ||| |||||||   || ||| |   ||   |  ||||       ||   ||| ||   | ||   ||  |||||| |||      |  |   |   ||  ||||                                                                                                         
GTCTGAAGCCAAGGATTTGCTGGGGGATGATTGGGTACAACGACATAGGAGGATTGTGCAGCAGCATGCAAATCAATACAAAAGAAATGCTTGGGCAAAGgtgtagttctagtgacctcggtgactgttgtcttgcagc-ttagatgtcacttggatattttgttattaatgataaaggcgtctgagtagattgttttaaaatatcctgatgtttggttgcatgtaaatgctcaatttattctaacattaatatttgttaaaatttcctattttttaattttgattcttttccttggcag

upper sequence: AT5G03540.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 9
GTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAGgttctgt-ctatttgtctaact--ctgtaaagaaacactattatataaaatttcattaaattgttactaa-gaaactgttacatattttg--tag------
||| ||||||||||||||  | || ||||||||||| ||| |||||||| | || |||||||| |||||||| ||||||||||||  ||| ||| |||||||  ||| ||| |    |  ||  ||||       ||   ||| ||   | ||   ||  |||||| ||| || |  |  |  |   | |  | |      
GTCTGAAGCCAAGGATTTACTGGGGGATGATTGGGTACAACGACATAGGAGGATTGTGCAGCAGCATGCAAATCAATACAAAAGAAATGCTTGGGCAAAGgtgttgttctagtaactttgctgactgttgtcttgcagc-ttagatgtcacttggatattttgttattaatgataaaggcatctgagtagattggtttaaa

upper sequence: AT5G03540.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 5'ss of exon 9
GTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAGgttctgtct------atttgtctaactctgtaaagaaacactattatataaaatttcattaaattgttactaagaaactgttacatattttgtag-----
||| |||||||| ||||| ||||| ||||||||||| ||||||||| |  | || |||||||| |||||||| || ||||| ||   ||||||| |||||||  | |||      |||     || || ||| || |   || | |   |   | |  || | || |   | |     | | | | |      ||     
GTCTGAAGCCAAAGATTTATTAGGGGATGATTGGGTGCAAAGACATCGAAGGATTGTGCAGCAGCATGCAAATCAGTACAAGAGGAATGCCTGGGCAAAGgtattctctgacccaattgaatgaaatcagtagaggagtgctctaaggaattgtattttttatttttattttattttttatgagaaacaaaaaaggtatt

upper sequence: AT5G03540.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S39_74V6.1 (Physcomitrella patens), 5'ss of exon 9
GTCAGAAGCCAAGGATTTGTTAGGCGATGATTGGGTTCAAAGACATAGGCGTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAGgttctgtctatttgtctaactctgtaaagaaacactattatataaaatttcattaaattgttactaagaaa--ctgttacatattttgtag----------
 ||||| || || ||  |  | |||||||| ||||||||||||||  | ||||| || |||||||||||||||  |||  |  | | |||||||   |||||  | |    || | ||  | | |         ||    | | ||  |||| |    | ||| ||  |    |  |    || ||   |           
ATCAGAGGCAAAAGACCTACTGGGCGATGACTGGGTTCAAAGACAACGACGTATTGTCCAGCAACATGCAAACACATATCAGCGTGCTGCCTGGGGCAAGgtgattttctgttttgtacttgtttttgcttggtctgg-gttttaatcttcacttttatattagtagaagcgtccatcctctacttctcatacttgtaccg

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|164041897|gb|ES150345.1|ES150345
EST:     GTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAG                         ATACTACAAAGCTCATCG
genomic: GTATCGTGCAGCAACATGCAAACCAATACAAAAGAGTTGCCTGGACAAAGgttctgtcta ... tattttgtagATACTACAAAGCTCATCG