Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactccttcgcaagcaactggtttagggttcagtggactgtatgaatggaatggatttggatatgatctctttgttgttatgcttttgtttgtgtttag

Basic information

species Arabidopsis thaliana
transcript AT3G48960.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os06g02510.3 (Oryza sativa), 5'ss of exon 4
CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtac---tccttcgcaagcaactggtttagggttcagtggactgta-tgaatggaatggatttggatatgatctctttgttgttatgcttttgtttgtgtttag
 |||||||| ||  | || ||| | ||  |||| |||||||||||||| ||||||||||| ||| | || ||||||||  |  ||||||| | |||||||||       |||  |  ||    |  |||   || |    |||||  ||||        |  |  |     ||  || |  |                      
TAAGAACCGCTCACTTGAAGGTCTGCAGGCCAATGTCCAGAGGCTGAAGACCTACAAGGCCAAGCTTGTCATCTTCCCAAGACGTGCCCGCAAGGTCAAGgtgagggaactttacccgccttagccttacacttaaacccactgttctgaagatcccttacattaaccaactcctttcgcag----------------------

upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G409407_T01 (Zea mays), 5'ss of exon 4
CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactccttcgcaagc------aactggtttagggttc--agtggactgtatgaatggaatggatttggatatgatctctttgttgttatgcttttgtttgtgtttag
|||||||   ||| | |||||  | ||  |||| ||||||||||| || || |||||||| ||| |||||||||||||  |  |||| || | || ||| |||    |    |  |       | ||  ||     |   ||  | || | |  | |  |||    | | | |||  |||      || ||   |   ||   |  ||
CAAGAACAAATCTCTCGAGGGACTGCAGGCCAATGTCCAGAGGCTTAAGACGTACAAGGCCAAGCTGGTTATCTTCCCAAGGCGTGCTCGCAAGGCCAATgtatgtgtagaaatactttcctgaatgccttgtcccttgaagacgcctctcttgaagacatgctggttgttttgacttctaatcccttgtggcctaccttcaatgcag

upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G081102_T03 (Zea mays), 5'ss of exon 4
CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactccttcgcaagcaactggtttagggttcagtggactgtatgaatggaatggatttggata---tgatctctttgttgttatgcttttgtttgtgtt-tag
|||||||   ||  | |||||  | ||  |||| ||||||||||| || || |||||||| ||| |||||||||||||  |  |||| || | |||||||||| |   | |  | |   |  |  |   || |||  |     |||| | | ||  | ||| |    |||||||    |   |   |   |  || ||||  ||
CAAGAACAAATCCCTTGAGGGGCTGCAGGCCAATGTCCAGAGGCTTAAGACATACAAGGCCAAGCTGGTTATCTTCCCAAGGCGTGCTCGCAAGGTCAAGgta-tgagtagtcatcttttcctgaacaattaagt--atctcttgaaggcattgtctctggctgctttgatctcaaaatcccttatcacctacttttgttgcag

upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G145280_T01 (Zea mays), 5'ss of exon 4
CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactccttcgcaagcaactggtttagggttcagtggactgtatgaatggaatggatttggatatgatctctttgttgttatgcttttgtttgtgtttag
|||||||   ||  | |||||  | ||  |||| ||||||||||| || || |||||||| ||| |||||||||||||  |  |||| |  | ||| ||||||     | |  |||||    ||      | |  | | |||    ||   |     || ||  |    ||| |  |    | ||||  ||   |     
CAAGAACAAATCCCTTGAGGGACTGCAGGCCAATGTCCAGAGGCTTAAGACATACAAGGCCAAGCTGGTTATCTTCCCAAGGCGTGCACACAAGGTTAAGgta-----tgggcagcaatcttttccttagtgaaagcattgttcttatcttagctgcttcgacctctaatctcttatcacctactttcattgcag-----

upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G145280_T02 (Zea mays), 5'ss of exon 4
------CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactccttcgcaagcaactggtttagggttcagtggactgtatgaatggaatggatttggatatgatctctttgttgttatgcttttgtttgtgtttag
      |||||||   ||  | |||||  | ||  |||| ||||||||||| || || |||||||| ||| |||||||||||||  |  |||| |  | ||| ||||||     | |  |||||    ||      | |  | | |||    ||   |     || ||  |    ||| |  |    | ||||  ||   |     
CCGCCGCAAGAACAAATCCCTTGAGGGACTGCAGGCCAATGTCCAGAGGCTTAAGACATACAAGGCCAAGCTGGTTATCTTCCCAAGGCGTGCACACAAGgttaaggta-----tgggcagcaatcttttccttagtgaaagcattgttcttatcttagctgcttcgacctctaatctcttatcacctactttcattgcag-----

upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G17370.2 (Glycine max), 5'ss of exon 3
CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactcc----ttcgcaagcaactggtttagggttca---gtggactgtatgaatggaatggatttggatatgatctctttgttgttatgctttt--gtttgtgtttag-------------------------
 ||||| || ||||||||| || | ||  |||| || |||||||| |||||||||||||||||||||||| | |||||  |  | || |  | ||||||||||   |    |||   |   | |  |||   | | |   |   | | |||  ||   ||||   |    || | ||  |   |  ||  | ||   ||||| | ||                           
AAAGAATCGTTCTTTGGAGAGTCTGCAGGCCAATGTGCAGAGGCTCAAAACCTACAAGGCTAAGTTGGTTGTGTTCCCAAGAAGGGCACACAAGGTCAAGgtaaagctaaattcttcaatcattaatttgatgattatgtgcaaattttatttattttatggtcat---cattaccttgtaagtagtaaacattgaagtttgagattgtttacatccctaattttgctttgcag

upper sequence: AT3G48960.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G08090.1 (Glycine max), 5'ss of exon 4
CAAGAACCGGTCTTTGGAGGGTTTTCAAACCAACGTCCAGAGGCTGAAAACCTACAAGGCTAAGTTGGTTATCTTCCCGCGCTGTGCCCGAACGGTCAAGgtactccttcgcaagcaactggtttagggttcagtggac-tgtatgaatggaatggattt---ggatatgatctctttgttgttatgc--ttttgtttgtgtttag-----------------------------
 ||||| || ||||||||| || | ||  |||| || |||||||| |||||||||||||||||||||||| | |||||  |  | || |  | ||||||||||   ||         | |  ||     ||   |||   |||   |||   ||  ||||   ||  || ||  | |||    || |      | ||   ||||                               
AAAGAATCGTTCTTTGGAGAGTCTGCAGGCCAATGTGCAGAGGCTCAAAACCTACAAGGCTAAGTTGGTTGTGTTCCCAAGAAGGGCACACAAGGTCAAGgtaaagctaaattcttcaattattattaatttgatggttatgtgcaaattttatttattttatggtcatcattcccttggaagtaggaaacaatattgaagtttgagattgtttatgtccctatttgctttgcag