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

GTATGGTCCTCCTGGAACCGGAAAGACGTTGATGGCCCGAGCTTGTGCAGCACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaactagagtaaacgtaactgattttgatcttgttcctgtgatattttttgaaccaaacggaaagtaactttttttagacttatgtatag

Basic information

species Arabidopsis thaliana
transcript AT1G09100.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os06g07630.1 (Oryza sativa), 5'ss of exon 5
GTATGGTCCTCCTGGAACCGGAAAGACGTTGATGGCCCGAGCTTGTGCAGCACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaactagagtaaacgtaactgatt--ttgatcttgttcctgtgatattttttgaaccaaacggaaagtaactt--tttttagacttatgta-tag-
|||||| || |||||||| || ||||| |||||||| || || ||||| |||||||||||||| || ||||| ||| |||| || |||||| | || ||||||  |  | |    | ||   ||  | |   |||||  |  || | |  | || ||   ||||    || | | | ||  | || |     | | | ||| 
GTATGGACCACCTGGAACTGGGAAGACATTGATGGCTCGTGCATGTGCTGCACAGACAAATGCGACGTTCCTGAAATTAGCTGGTCCACAATTAGTCCAGgta--attatttatttcaattaaaaagctccattgattatcatcttttttttttcttgtgaccatgttgatatttatttggtgttcatggggaggcaatagt

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA10G29250.1 (Glycine max), 5'ss of exon 5
GTATGGTCCTCCTGGAACCGGAAAGACGTTGATGGCCCGAGCTTGTGCAGCACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaactagagtaaacgtaactgattttgatcttgttcctgtgatattttttgaaccaaacggaaagtaactttttttagacttatgtatag-------------
 ||||| ||||| || || || || || ||||||||||| || |||||||||||||||||||| ||||| || ||| | ||||| || ||||| || ||||||||| || |          |  ||  ||||  | ||  |||  | |||| |||  || ||     || |   |  || ||| |  | ||||                
ATATGGACCTCCGGGGACTGGGAAAACATTGATGGCCCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCAGGCCCTCAACTGGTCCAGgtatgacaatt--------tatttctagtttttctttttctcc-attatatatttgtaagcatgactaatgattccattgttacatgtttgtaccaactaattatacca

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA20G38030.1 (Glycine max), 5'ss of exon 5
GTATGGTCCTCCTGGAACCGGAAAGACGTTGATGGCCCGAGCTTGTGCAGCACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaactagagta-aacgtaactgattttgatcttgttcctgtgatattttttgaaccaaacggaaagtaactttttttagacttatgtatag------
|||||| ||||| || || || || || |||||||| || || |||||||||||||||||||| ||||| || ||| | || || || ||||| || ||||||||| || |    || |   |||       | ||  |  | || | | || |||  | |  |||  |   || | || || | |  |  |||         
GTATGGACCTCCAGGGACTGGGAAAACATTGATGGCTCGTGCCTGTGCAGCACAGACAAATGCCACTTTTCTGAAATTGGCTGGCCCTCAACTGGTCCAGgtatgacaatttatttatagtctaagcatgactaatgattctactattacatgtttgtatc--aactaattatatcattatt-acatgttcgtaacattttcc

upper sequence: AT1G09100.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA03G39500.1 (Glycine max), 5'ss of exon 5
GTATGGTCCTCCTGGAACCGGAAAGACGTTGATGGCCCGAGCTTGTGCAGCACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaactagagtaa-acgtaactgattttgatcttgttcctgtgatattttttgaaccaaa---cggaaagtaactttttttagacttatgtatag
 ||||| ||||| ||||| ||||| ||  | || ||||| |||||||||||||| |||||||| ||||| || ||  | ||||| ||||| || || |||||||||    |  | |   ||     | |||||  | |  |  ||   |  ||  ||| | |  |    | |  ||      |||||   |  || ||  
ATATGGACCTCCAGGAACTGGAAAAACACTAATTGCCCGTGCTTGTGCAGCACAAACAAATGCCACTTTTCTGAAGTTGGCAGGTCCACAGCTGGTCCAGgtatgactcttccatttttacccgtttaattttcttatcatgactagtaatttcattgtatcttattttgaattgttggcaattttaatttactgaattt

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|164193317|gb|ES024452.1|ES024452
EST:     CACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAG                         ATGTTCATCGGAGATGGAGCAAAACTTGTCCGTG
genomic: CACAGACAAATGCAACTTTCCTCAAACTAGCAGGGCCACAACTTGTTCAGgtatgaaaac ... ttatgtatagATGTTCATCGGAGATGGAGCAAAACTTGTCCGTG