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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATCAGCTTAATGAGCATGCTAAATTGTCCATGCTTCGAAATGCCACTTGGACCTTGTCAAACTTCTGTCGTGGCAAGCCTCAGCCTCACTTTGACCAGgtctatttttttcccctccaagcttgtttcgtcaatgtttatgtctagtattcttctaacatatgaagcatgtttaacag

Basic information

species Arabidopsis thaliana
transcript AT3G06720.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G06720.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S63_171V6.1 (Physcomitrella patens), 5'ss of exon 5
CAATCAGCTTAATGAGCATGCTAAATTGTCCATGCTTCGAAATGCCACTTGGACCTTGTCAAACTTCTGTCGTGGCAAGCCTCAGCCTCACTTTGACCAGgtctatttttttcccctccaagcttgtttcgtcaatgtttatgtctagtattcttctaaca------tatgaagca-tgtttaacag--------------------------------------------------------------------------------------------------------------
|  ||||||||  ||   ||| || ||||| ||||||||||||||||| |||||  | ||||||||||| ||||| ||||| ||||| |  ||||| |||||       || ||  |  | |  || |   |    |   |  |||  | ||  |  | ||      | |  | || |||||   |                                                                                                               
CGCTCAGCTTACCGATACTGCGAAGTTGTCAATGCTTCGAAATGCCACCTGGACGCTCTCAAACTTCTGCCGTGGAAAGCCCCAGCCACCTTTTGAGCAGgtgagacgattcccagttgacgggtgctgtctgctggcgaaattctcttctttgtggagcagctcattgtacaacactgtttgttattgaccatcatcgatctgtgttgtttcttgagtttgaatctttcgattcgtatattcacaggttctttgccaaatttcccacattgcagtctaataatttttggtttgcag

upper sequence: AT3G06720.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S230_50V6.1 (Physcomitrella patens), 5'ss of exon 5
CAATCAGCTTAATGAGCATGCTAAATTGTCCATGCTTCGAAATGCCACTTGGACCTTGTCAAACTTCTGTCGTGGCAAGCCTCAGCCTCACTTTGACCAGgtctatttttttccc--ctccaagcttgtttcgtcaatgtttatgtctagtattcttctaacatatgaagcatgtttaacag--------------------------------------------------------------------------------------
   |||||||| |||  |  | || ||||| ||||| || ||||| || |||||| | || ||||| |||||||||||||||||||| |  || || ||||| | |     ||     | | || | || || | |     | | || | | || |  | |  ||||   | | || | | |                                                                                      
TGCTCAGCTTACTGACAACACGAAGTTGTCAATGCTGCGGAATGCAACGTGGACCCTATCCAACTTTTGTCGTGGCAAGCCTCAGCCACCTTTCGAGCAGgtttgtacgcctcgtgatttctagatggtctcat-atcaactttctccaattttttgattatctatg---cttattcatctgagacgtatcttgtgaaggctgatttgtttcttctagtacgctgccatgaagtcgatgattcatatttttattttaaattcttgcag

upper sequence: AT3G06720.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S165_54V6.1 (Physcomitrella patens), 5'ss of exon 5
CAATCAGCTTAATGAGCATGCTAAATTGTCCATGCTTCGAAATGCCACTTGGACCTTGTCAAACTTCTGTCGTGGCAAGCCTCAGCCTCACTTTGACCAGgtctatttt----tttcccctccaagcttgtt-tcgtcaatgtttatgtctagta--ttcttctaaca-tatgaagcatgtttaacag------------
    |||||||  ||| |  | |||||||| |||||| |||| || || |||||  | || ||||||||||||||||||||||| || |  ||||| ||||| | |  |    ||    | |  |   | || |  | | | ||  |  | |||   ||| | | ||| || ||     | ||  |              
TGCGCAGCTTACGGAGAACACAAAATTGTCTATGCTTAGAAACGCTACCTGGACTCTCTCCAACTTCTGTCGTGGCAAGCCTCAACCACCTTTTGAGCAGgtatgtgatgtgattattacgcttactctattattattattcttattagcaagtgatttcgtttgacagtaagatattcgcttctctcttattttcttcc

upper sequence: AT3G06720.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: PP1S165_51V6.1 (Physcomitrella patens), 5'ss of exon 5
CAATCAGCTTAATGAGCATGCTAAATTGTCCATGCTTCGAAATGCCACTTGGACCTTGTCAAACTTCTGTCGTGGCAAGCCTCAGCCTCACTTTGACCAGgt--ctatttttttcccctcca-agcttgt-ttcgtcaatgtttatgtctagtattcttctaacatatgaagcatgtttaacag-----------------------------------------------------------------------------------
|   |||||||  ||  |  ||||||| ||||||||  ||||||||||||||||  | || ||||| |||||||| || |||||||||  |||||| |||||  || |    || |  |     | |  | ||||     | | || |      |  |      || |||    |||   || |                                                                                   
CGCCCAGCTTACCGACAACACTAAATTATCCATGCTCAGAAATGCCACTTGGACGCTCTCCAACTTTTGTCGTGGAAAACCTCAGCCTTCCTTTGAACAGgtagctctccgcttgcagtttgcggttcatattcgctgggggtgatctgccacctggtatggctatgtgacctttgtccgaccgactcatgttctcagttttgtagttgtaacgtgtgtagaagaacaaaagtcttcttttctaacgactcggcctcctctttgcag

upper sequence: AT3G06720.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: EFJ38593 (Selaginella moellendorffii), 5'ss of exon 5
CAATCAGCTTAATGAGCATGCTAAATTGTCCATGCTTCGAAATGCCACTTGGACCTTGTCAAACTTCTGTCGTGGCAAGCCTCAGCCTCACTTTGACCAGgtctatttttttcccctccaagcttgtttcgtcaatgtttatgtctagtattcttctaacatatgaagcatgtttaacag
    ||||| || ||| |||| ||  |||| ||||| || || || || ||||| || |||||||| |||||||||||||| |||||  ||||||| ||||  ||| |   ||   |  | || |||     |||  || ||   | ||    |  |      || ||            
AGCACAGCTGAACGAGAATGCGAAGCTGTCTATGCTGCGCAACGCAACGTGGACGTTATCAAACTTTTGTCGTGGCAAGCCGCAGCCGAACTTTGAGCAGg--tatgtgggtcatttgtaggcatgtcgatacaaatttgatcgttggt-cggtgttgtttcttgcag------------

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|124909909|gb|EH983989.1|EH983989
EST:     GACCTTGTCAAACTTCTGTCGTGGCAAGCCTTCAGCCTCACTTTGACCAG                         GTCAAACCTGCTCTTCCCGCCCTTGAACGACTAATTCATTCAGATGATGAA
genomic: GACCTTGTCAAACTTCTGTCGTGGCAAGCC-TCAGCCTCACTTTGACCAGgtctattttt ... tgtttaacagGTCAAACCTGCTCTTCCCGCCCTTGAACGACTAATTCATTCAGATGATGAA