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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgtctttattttagttcatcgtgttgctttggtcgatataactatatgaatataataataaacatagttcatgattgattattttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTACTGGAAAACCATGAATGGTCTTCCACCAACCTCA

Basic information

species Arabidopsis thaliana
transcript AT3G15840.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G15840.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv09s0002g06980.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------------------------------gtctgtctttattttagttcatcgtgttgctttgg--tcgatataactatatgaatataataataaacatagttcatga-ttgattattttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTACTGGAAAACCATGAATGGTCTTCCACCAACCTCA
                                                                |  | |  ||  | | | | ||    || |||||   ||  | |    ||   | ||||||  |      |  |  | | |   ||| |||   ||    ||||||||||||||||| ||||| ||  | || |  |||||||| |||||||| ||||||||||| ||||| || |  || 
gtatgtgccctcatttttctaccaagccaatcttttcgtcattttaatgttgagaggcatgcgagaattttctttctcttgctgataa-atttctttgacttctgtttggaaattgaattataattttgtcatcacctgctaaatcctttactttttcagGGTTAAGCTTCCTTCATGGGCGATGTTTGAACTTGGGAGGGCTCCTGTCTACTGGAAGACCATGAATGGCCTTCCTCCTAGTTCT
















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|47830759|gb|CK120443.1|CK120443
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|125238625|gb|EL252710.1|EL252710
EST:     AGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGG
genomic: AGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGG
EST: gi|125159446|gb|EL187529.1|EL187529
EST:     CTGTTGCCACGACTCTTGCACCTCTCGAGGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|47828708|gb|CK118392.1|CK118392
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|47831953|gb|CK121637.1|CK121637
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|116441102|gb|EG483694.1|EG483694
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
EST: gi|124732869|gb|EH824271.1|EH824271
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTC
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTC
EST: gi|116479684|gb|EG522276.1|EG522276
EST:     CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGA                         ATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA
genomic: CAAGTTAAAGCTGTTGCCACGACTCTTGCACCTCTCGAAGAGATCAAAGAgtctgtcttt ... attttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atataactatatgaatataataataaacatagttcatgattgattattttgatagATACAAGCTTCCTTCATGGGCCATGTTCGAGATGGGTACTGCTCCTGTGTACTGGAAAACCATGAATGGTCTTCCACCAACCTCA
                                           ttatttt  CT-rich tract
             aatataataataaaca  TA-rich tract