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'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag

Basic information

species Arabidopsis thaliana
transcript AT1G13000.2
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA18G01710.1 (Glycine max), 5'ss of exon 11
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                     ||| |||||||||||||||||||| || ||||||||||||||||||   || |  | | |    ||  ||| | ||| |    |    | ||||  |  |  || |  ||||       ||   ||  || |  | |   |    | |   || ||||  |      |  |    ||   | |  |        
GTTTGTTGAGATTATGGCTCCAGTGTTCTCAAGAGATGCATGGCGCTGTGTGTGGCATATGATTCAGgttgact--gattaatcctgaagtcctaattgc---tttaaaagatgccctt-gactagttgttttt------tatgatgcatccttgacaagttctttaagcacttagtaaaattatggttgtaccacttgacattgcag-------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 11
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattt--tgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                     ||| || ||| |||||||||||||||| || |||||||||||||||    | |               || ||   ||    ||   |||||       ||||| |  |||  || ||   ||     |||| | ||    ||    ||   ||  |   |||   | ||    | ||                  
ATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCGTTGTGTCTGGCATATGATTCAGgttaaat---------------gttttctctttattctttttaaatatccattggttagttgtttaatgtctgtttaagcgcactcgttaaagt-ctaacaattaattatgattgttccattctgggcatttcag---------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA05G30830.1 (Glycine max), 5'ss of exon 11
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                     ||| || ||| |||||||||||| ||| ||||||||||||||||||    | |  ||| ||  ||    ||||  ||    |  |  |   ||  |   |  |  | ||     |   | |   | ||  |||| ||   | |  |  |  | || |  | |                                
ATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAGgttaaat--gtttactctttat-tcttttttaaatatccattggttgtttaatgtctgtttatgcactcgttagagtctaacaattaattatgattgtaacattctgggcatttcag-------------------------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA11G37770.1 (Glycine max), 5'ss of exon 11
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATG-CGTTGA--Ggttaatcattttgc-ctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                     ||| |||||  ||||||||||||| || ||||||||||||||||||   || |  ||| |    |   ||| | |||      |    | ||| | ||||   |||  || ||  || ||   ||   | |   ||  |  |||| ||||||                                              
GTTTGTTGAGATTATGGCTCCAGTGTTCTCGCGAGATGCATGGCGCTGTGTGTGGCATATGATTCAGgttgact--gttaatc-ctaaagtcctaattgt---tttaaaagatgtccttgataagttgttctttaagcacttggtaaaattatgattgtac-cacttgacatgcag-------------------------------------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 5'ss of exon 2
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGC-GTTGAGgt-taatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                      ||||| || |||||||||||||| || |||||||||||| |||||    || |         ||  |   |  | |  |  ||| ||   | | |||||  | | |  ||   |  ||  | ||||  || |   |   || |                                                    
GTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAGgtatatatatcctcaaatttagaatt--agtaagttctcagttgctccagttgacctgttactatcaagtttaagtgccttt-ctatgggaattacag----------------------------------------------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 5'ss of exon 11
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGC-GTTGAGgt-taatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                      ||||| || |||||||||||||| || |||||||||||| |||||    || |         ||  |   |  | |  |  ||| ||   | | |||||  | | |  ||   |  ||  | ||||  || |   |    | |                                                    
GTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAGgtatatatatcctcaaatttagaatt--agtaagttctcagttgctccagttgacctgttactatcaagtttaagtgccttt-ctgtgggaattgcag----------------------------------------------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 5'ss of exon 6
---------------------AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
                      ||||| || |||||||||||||| || |||||||||||| |||||    || |                ||  | ||   | |  |||| | |  | || |    || ||  |||   |||  | |   |||| |   ||     || |  | | |                                     
GTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAGgtatatctatc-------------ctcaaatttagaattagtaagttc--tcagttgctccaattgacctgt-tactatcaagtttaagtgt-ctttctgtgggaattgcag------------------------------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ09147 (Selaginella moellendorffii), 5'ss of exon 7
AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
 || || || ||  |||| ||| | ||||||||||||||||| || ||||||||||| ||||||||||| || || |||   || |  ||||| |   |||||| |  |  ||  |       ||||||   |    |  |     |  |||||    ||||  |||                           
GGTGTTTTCCAGGAATGCTTGGAGATGCGTGTGGCATATGATACAAAACGATTTGGTACACGGTTGGGGCCTCGACTTCAATCTTCAGAAATGTGCACAGgttagttctagtgtat-------ttgacttccaggctc-ttacgttttcgtttgt--ggttacatacag-------------------------

upper sequence: AT1G13000.2 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: EFJ06933 (Selaginella moellendorffii), 5'ss of exon 10
AGTATTCTCAAGAGATGCATGGCGTTGCGTGTGGCATATGATTCAGAACGATTTGGTTCACGGTTGGGGTCTTGATTTCGCACTCCGTAAATGCGTTGAGgttaatcattttgcctacataccttgactcttaaatacactggacatgtgtttggtaagttatctactaaaaagtttcctaataaaacaaacag
 || || || ||  |||| ||| | ||||||||||||||||| || ||||||||||| ||||||||||| || || |||   || |  ||||| |   |||||| |  |  ||  |       ||||||   |  | |  |     |  |||||    ||||  |||                           
GGTGTTTTCCAGGAATGCTTGGAGATGCGTGTGGCATATGATACAAAACGATTTGGTACACGGTTGGGGCCTCGACTTCAATCTTCAGAAATGTGCACAGgttagttctagtgtat-------ttgacttccaggttc-ttacgttttcgtttgt--ggttacatacag-------------------------

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|125009330|gb|EL081599.1|EL081599
EST:     TTTCGCACTCCGTAAATGCGTTGAG                         CCTGCACATGAGAAGATAGGAGTTGTGGATTCTCAATGGA
genomic: TTTCGCACTCCGTAAATGCGTTGAGgttaatcatt ... aaacaaacagCCTGCACATGAGAAGATAGGAGTTGTGGATTCTCAATGGA