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

GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag

Basic information

species Arabidopsis thaliana
transcript AT1G79920.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G023232_T01 (Zea mays), 5'ss of exon 2
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| || || || ||||||||||||||||||||  || | ||||||||  | |||||||| |||||||| || || || ||||| || ||||||||||||     | | || || | | | |||| ||     | ||||||  ||||    |     | ||      |||||||  ||  ||    |    | | | |    | |||  ||  |        
GGAGCCAAGACGAACCATGAATGCAAGTGAGTGTGTTGCGCGAGGATGTGCTCTTCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGAGAATTCCAGgtatcagctccttagct-taccttagtatat----ctgttttaagctact----atgggttgga------ttatact--agactagtctatatcttaaactgctgtctatgcttgct--------

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G063676_T01 (Zea mays), 5'ss of exon 2
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| || || || ||||||||||| ||||||||  || |||| |||||  | |||||||| |||||||| || || || ||||| || ||||||||||||   | | ||| | | | |||           ||| ||||||  || | | | |    | ||  | | |  | |  | |  ||| |||      | | | |  | |||  |  ||        
GGAGCCGAGACGAACCATGAATGCAAGCGAGTGTGTTGCGCGGGGCTGTGCTCTCCAGTGTGCTATTCTCAGCCCCACTTTCAAAGTGCGGGAATTCCAGgtataatct-cattttttttcttc------ctatgttgttttaagcta-tggcagg--gttagattattctagtgc--cggtctatatgat-----agactgtcgtctatgctccgt--------

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G361605_T02 (Zea mays), 5'ss of exon 4
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| ||||| || ||||||||||||||||||||  |  | ||||||||  | |||||||| || ||||| || || || ||||| || |||||||||||   ||| ||  |||| |  |||  |   |   | ||    |  ||  |  ||  | |||   |  |||| | |||   || ||    | || |   ||  |||                    
GGAGCCAAGGCGAACCATGAATGCAAGTGAGTGTGTTGCACGAGGATGTGCTCTTCAGTGTGCTATGCTCAGCCCCACTTTCAAAGTGCGGGAATTCCAGgt---ttgagctcatcttt--ttatctggtttaagctaccgaatggttatattattccactgccggtctgtcacactaatggatactaaaataattgcatactga--------------------

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G43630.2 (Glycine max), 5'ss of exon 2
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtac-ttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| ||||| ||||||||||| |||||||||||  | ||||| ||||| ||||||||||| ||||||||||| || |||||||| || || || ||||||| || | |    |   |||   |||    ||  || ||| |  | | || |    |  |  | || |       ||  ||  |  | |  |||  | || | ||||                 
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGTTGTGCATTGCAGTGTGCAATTCTCAGTCCAACTTTTAAAGTACGGGAGTTTCAGgtaaattttcc----cccggct---gtattgctctctagtttgaaatgccttctgcaaagttttataattaaagggatcatgg--acttcagcagttgttttgttattt-----------------

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G01750.1 (Glycine max), 5'ss of exon 2
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| ||||| ||||||||||| |||||||||||  | ||||| ||||| ||||||||||| |||||||| || || |||||||| || || || |||||||       | || |   ||            |  ||| ||||||  ||  ||   | || | |  ||  |   | ||| |  | | || | ||||    |     ||||||| || | ||  
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCCAGGGGCTGTGCATTGCAGTGTGCAATTCTCAGCCCAACTTTTAAAGTACGGGAGTTTCAGgtaa-------aaattttccct------------gccattataatgt--tttaaaattattcaata--tggaactgttcagatctttttacgaatcatggacttcagcattttttattttttt--

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G00820.1 (Glycine max), 5'ss of exon 1
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| ||||| ||||||||||| |||||||||||  | ||||||||||| ||| | ||||| ||||| ||||| || || ||||| || ||||| |||||||  | |     | |  | |  | |     ||  ||||| | |  | ||        | | || ||  | |||  |||   | |  |  | ||     | |   ||  || ||||  |     
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCTAGGGGATGTGCGTTGGAATGTGCAATTCTTAGTCCAACGTTCAAAGTACGAGAATTTCAGgtaaagttt-----tttgcgttggattgt---tctctatttcatttcaatt--------cacaaggaccctcatatgcca--ctgttggttttgtaggcctgt---ttgcttattgtcttt----

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G22100.1 (Glycine max), 5'ss of exon 1
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaaatgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
|||||| ||||| ||||||||||| |||||||||||  | ||||| ||||| ||| | || || ||||| ||||| || || ||||| || ||||| |||||||  | | ||||  |  | ||         ||  ||||| | |  | ||   |        || ||  | |||| |||   | |  |  | || |  ||     ||  || ||||  ||    
GGAGCCTAGGCGGACAATGAATGCTAGTGAGTGTGTTGCTAGGGGCTGTGCGTTGGAATGCGCAATTCTTAGTCCAACGTTCAAAGTACGAGAATTTCAGgtaaagttt-catacgttggattgt-------tctctatttcatttcaattcaga--------aggaccctcatacgcca--ctgttggttttgtaagcttgc---ttgcttattgtcttc----

upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv09s0002g04680.t01 (Vitis vinifera), 5'ss of exon 1
GGAGCCCAGGCGTACAATGAATGCAAGTGAGTGTGTGTCGAGGGGATGTGCCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtgcatatctatgcttaagtaa-atgtcgttattttaatgtacttgtaagcaactcgagaactgttatactccaggttatctgactagtcatattatgatttattttttgttctcttag
||| || ||||| |||||||||||||||||||||||| | | ||| |||||  | || ||||| ||||| || || || |||||||| || || || |||||||      |   | |   |||| ||   || |  || | || || || |   |||  |     |   || | |  | | || |||     ||    |  | || ||                  
GGAACCTAGGCGGACAATGAATGCAAGTGAGTGTGTGGCCAAGGGCTGTGCTCTACAATGTGCAATTCTTAGCCCAACATTTAAAGTGCGAGAGTTTCAGgtaaa----actcctttcaacttaggttgtatcttattttctttatttatt--gaagtgaaatatgtgttgcttttttac-ggctattgagttaaatttcct-tggtt------------------

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|47830571|gb|CK120255.1|CK120255
EST:     CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAG                         GTTCATGAGAGCTTCCCTTTCTCAATATCGCTTGCTTGGAAAGGAGCAGCG
genomic: CCTTGCAGTGTGCCATTCTCAGTCCGACCTTTAAAGTTCGCGAATTCCAGgtaatttgtg ... gttctcttagGTTCATGAGAGCTTCCCTTTCTCAATATCGCTTGCTTGGAAAGGAGCAGCG