Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCATCTTTCCACAATTACCGTATTTGGTCTTTCCTCGGCCTTGGCATGACCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCAGgtatgtcctcatcaaaatcaaatgatttaaatgaagaaaaaacaatgtgacttaaaccggttgtaacttactggtttgtag

Basic information

species Arabidopsis thaliana
transcript AT5G01240.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g63770.1 (Oryza sativa), 5'ss of exon 5
ACCATCTTTCCACAATTACCGTATTTGGTCTTTCCTCGGCCTTGGCATGACCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCAGgta------------------tgtcctcatcaaaatca-aatgattta----aatgaagaaaaaacaatgtgacttaaaccggttgtaact--tactggtttgtag-----
 || || |||||||| ||||| || ||||| ||||| ||||| |||||||||||||| ||||||||||||||| |||||||| |  | ||| | || |||||                   ||||||  |||   ||   || ||  |        |  | |   | || |  |||      |  || |||  |  | |||||        
CCCGTCGTTCCACAACTACCGGATCTGGTCCTTCCTGGGCCTCGGCATGACCACCTATACCGCTTGGTACCTCGCCATCGCCGCCCTCCTCAACGGCCAGgtgagataagaagagggaaactgtccttgtcactttctcgatcatccatcgcgtctactacatgtccatttagcttgggtttgcagtgactgatgatcgtttgcgtcgcag

upper sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os05g37470.1 (Oryza sativa), 5'ss of exon 4
ACCATCTTTCCACAATTACCGTATTTGGTCTTTCCTCGGCCTTGGCATGACCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCAGgtatgtcctcatcaaaatcaaatgatttaaatgaagaaaaaacaatgtgacttaaaccggt-tgtaacttactg----gtttgtag-----------------------------------------------------------------------------------------------------
 || || |||||||| ||||| || ||||| ||||| ||||| |||||||||||||||||||| ||||||||| |||||||| |     |||| || |||||  ||||||   |  |||    |   |    |   | ||| ||||    | | | ||||    |   | ||      |||| ||                                                                                                      
CCCCTCCTTCCACAACTACCGCATCTGGTCCTTCCTTGGCCTCGGCATGACCACCTACACCGCCTGGTACCTCGCCATCGCCGCCGCCGTCCACGGCCAGgtgagtcctcg--atcatcgcccgccgtcgtcggccataaatcaataaatcatcagccggcacatgcttgaccacactgtttataagcatggttgcaatgattatgtatgattcgattcgatggggggctaataacgatgtgtatgattcggcgtggccgctgatcgaattcgactcgatgtcgcag

upper sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G067022_T02 (Zea mays), 5'ss of exon 4
ACCATCTTTCCACAATTACCGTATTTGGTCTTTCCTCGGCCTTGGCATGACCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCAGgtatgtcctcatcaaaatca--aatgatttaaatgaagaaaaaacaatg-tgacttaaaccggttgtaacttactggtttgtag----------
 || || | |||||| |||||  | ||||| ||||||||||| |||||||||||||||||||| |||||||||||||||||| |     |||| || |||||  | || |        |     | ||| || | | |          |   | |   || |  |||  ||    |  | |  |          
CCCCTCGTACCACAACTACCGCGTCTGGTCCTTCCTCGGCCTCGGCATGACCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagcccccccggcccccgtcgctcattcaattcatggcggcgtctcgaccagtgttactgactgtccctccgcgtgtcggcgcgccggacag

upper sequence: AT5G01240.2 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G127949_T07 (Zea mays), 5'ss of exon 5
ACCATCTTTCCACAATTACCGTATTTGGTCTTTCCTCGGCCTTGGCATGACCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCAGgtatgtcctcatcaaaatcaaatgatttaaatgaagaaaaaacaatgtgacttaaaccggttgtaacttactggtttgtag------------
 || || |||||||| ||||| || ||||| ||||| ||||| |||||||||||||||||||| ||||||||| |||||||| |  | ||| | || |||||  | || |  || |  ||          ||         |   | |  |    |      ||  |   |    | |  |            
CCCGTCCTTCCACAACTACCGGATCTGGTCCTTCCTGGGCCTCGGCATGACCACCTACACCGCGTGGTACCTCGCCATCGCCGCGCTCCTCAACGGCCAGgtgagccccccccacagccaccgccaccggatccgatcgctattgtctaccactgattcaccgtccccgtcgtcctcgccgacgcacatgcag

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|124910813|gb|EH984893.1|EH984893
EST:     CCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCGG                         GCGGAGGGTGTGACACATTCCGGTCCAACCAAGCTTGTGTTG
genomic: CCACCTACACCGCTTGGTACCTCACCATCGCCTCTTTTCTCCATGGTCAGgtatgtcctc ... tggtttgtagGCGGAGGGTGTGACACATTCCGGTCCAACCAAGCTTGTGTTG