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

gtatgtgacctctcatctctgcaccatgcctcagtactttcttccaaatttctataaaatattcttggtttgttaatgaattttgtctctcagGTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTTTCAGAAAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G51270.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA11G33320.1 (Glycine max), 3'ss of exon 8
----gtatgtgacctctcatctctgcaccatgcctcagtactttcttccaaatttctataaaatattcttggtttgttaatgaattttgtc----tctcagGTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTTTCAGAAAAAG
      |  || | |    | | |||   |    | ||   ||  |   |||     ||    ||||  ||| ||   ||     ||| ||    | |||||||||||||||||||| | ||||||||||| ||||||||||| |||||
taacagaaatg-cgtaagttgtatgccttaaagataaggtattaatggaaaagacacatgttttatttctggcttaacaacattatttatccttgtttcagGTACTTTGACCGTGATGTTGAATGCATCTTTAAGTTTTTCAGGAAAAG

upper sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA18G04910.1 (Glycine max), 3'ss of exon 8
----gtatgtgacctctcatctctgcaccatgcctcagt---actttcttccaaatttctataaaatattcttggtttgttaatgaattttgtctctcagGTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTTTCAGAAAAAG-
    | ||  |   |      |    |  | |  | | |   |    |    |  |||   |       |    |  | ||| | |   |||| | |||||||||||||||||||| | ||||||||||| ||||||||||| ||||| 
aaatgcataagttgtacgccttaaatataaggtattaatggaaaagccacatatgttttatttctggcctaacagcatattatttatccttgttt-tcaggTACTTTGACCGTGATGTTGAATGCATCTTTAAGTTTTTCAGGAAAAGG

upper sequence: AT3G51270.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv05s0094g01560.t01 (Vitis vinifera), 3'ss of exon 8
-----------------------------------------------------gtatgt-gacctctcatctctgcaccatgcctcagtactttc-----ttccaaatttctataaaatattcttggtttgt-taatga-attttgtctctcagGTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTTTCAGAAAAAG
                                                     || | | |  |  | || | |  | |    ||   ||||||       |      || | | ||||||| |   ||  | | |||| ||| ||  | |||||||||||||||||||| | || |||||||||||||||||||| || ||
gtatgaaacactacctattctgattttccatataatttttgtcctactcaactgtttttaggtcattgatttttttatccaatct-gctacttttgacatctgtttgcttgtttcaaatattatattttaatcttatgacattctgattttcagGTACTTTGACCGTGATGTTGAGTGCATCTTCAAGTTTTTCAGCAAGAG

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|164016050|gb|EL985748.1|EL985748
EST:     CAAATGGTATCTGTTTCACACCGAAATGCACAAAT                         GTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTT-CAGAAAA-G
genomic: CAAATGGTATCTGTTTCACACCGAAATGCACAAATgtatgtgacc ... tgtctctcagGTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTTTCAGAAAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttccaaatttctataaaatattcttggtttgttaatgaattttgtctctcagGTACTTTGACCGTGATATCGAATGCATCTTCAAGTTTTTCAGAAAAAG
                                tgttaat  putative branch site (score: 3)
                                          ttttgtctctc  putative PPT
       aaatttctataaaata  TA-rich tract