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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctatacttgtctgtgtttttctcctgcttgatgcacataaattttaacttctggtcgttccttgattatccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA

Basic information

species Arabidopsis thaliana
transcript AT1G13350.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G13350.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA20G24820.2 (Glycine max), 3'ss of exon 10
-----------------------gtaagctata-cttgtctgtgtttt-tctcctgctt-------gatgcacataaattttaacttctggtcgt------tccttgattatccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA
                        ||   | |  ||| ||    |||| | |  |  ||       ||   |  ||  || |||| | | ||  |      ||||   ||  | |||| |||||||  |  ||    || ||||||||||||||||||| ||| ||||||||||||| ||| |||||||||||||||||||| ||||| || ||  
gtatgcctaaaatactgttgtgtttagattgtttcttttcaaaattttgtttgttaatttcaagaagaaatatctattttctaacatttagttcttcaatttcctcttttgacaagGTAAATGAGGCTAAGAATGTTTTGAAGCTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

upper sequence: AT1G13350.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G20810.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------gtaagctatacttgtctgtgtttttctcctgcttgatgcacataaatttta----acttctggtcgttccttgat----tat-----ccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA---------
                                                  | || | || ||||   | |   ||| |||    |   | ||  |||||     |||| |  ||  |  |  |     |||     ||||||||| |||| || ||| || || ||| ||||||||||||||| ||| ||||||||||||| ||| |||||||||||||||||||| |||||||| ||           
gtatgaaaaattaatatttttttgttagattgtttcttttcaaagaaatattagttttatttgttgatctgcctcttctgaagaagaaatatccatttttccgtacttattttcccttttcaacctcctatttgcaccaggtgaa-gagGCAAAAAATACTTTTAAGTTTTGTGACTTTGGTAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGCTTTTATCGTGCCCCTG

upper sequence: AT1G13350.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA10G42220.1 (Glycine max), 3'ss of exon 13
-----------------------gtaagctatacttgtctgtgttttt-----ctcctgcttgatgcacataaattttaacttctggtcgttc------cttgattatccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA
                        ||   | |   | |   |  ||||      | |     ||   |  ||   | |||| | | ||  |||      ||   ||    |||| ||||||   | |||    || ||||||||||||||||| | ||| ||||||||||||| ||| |||||||||||||||||||| ||||| || ||  
gtatgcctaaattactgttgtgtttagattgtttcttttcctagttttgttaatttcaagaagaaatatctattatctaacatttagttcttcaatttcctcttttgataagGTAAATGAGTCTAAAAATGTTTTGAAGCTTTGTGACTTTGGCAATGCCATGTTTGCTGGTAAAAATGAAGTTACACCATATCTTGTGAGTCGTTTTTATC

upper sequence: AT1G13350.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv01s0011g03350.t01 (Vitis vinifera), 3'ss of exon 8
------------------gtaagctatacttgtctgtgtttttctcctgcttgatgcacataaatttt------aactt--ctggtcgttccttgattatc-cagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA
                   | |  |  | ||| |||  ||  | |  |  ||| |  | |||||||||      || ||  ||     ||| |||  | |  ||||| |||||||  | |||     | || || ||||| ||||||| ||| |||||| |||||| ||| ||| |||||||||||||||| || ||||| ||  
gtaggttttaagtatacttttatgtccagttgcctgccttagttttttatttgttata-ataaattttgcattgaattttactatatattcattgcctctttcagGTAAATGAGGCCAAAAATGTCCTGAAACTCTGTGATTTTGGTAATGCCATGTTTTCTGGTAAAAATGAAATTACACCATATCTTGTGAGCCGCTTTTATC

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|164079105|gb|EL982965.1|EL982965
EST:     TCAAGAACTGTGGGGTTCTTCACTGCGATATAAAGCCTGACAACATGCTG                         GTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTA
genomic: TCAAGAACTGTGGGGTTCTTCACTGCGATATAAAGCCTGACAACATGCTGgtaagctata ... gattatccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctcctgcttgatgcacataaattttaacttctggtcgttccttgattatccagGTGAATGAGGGAAGAAACACGTTAAAGCTTTGTGACTTTGGTAGTGCAATGTTTGCTGGTACAAACGAAGTTACACCATATCTTGTTAGTCGCTTCTACA
                                       ttccttg  CT-rich tract
                acataaattttaactt  TA-rich tract