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

CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatacaaaattgacatgcttttcaagtttgatcatatttttgaaggtttcgttttattcttcag

Basic information

species Arabidopsis thaliana
transcript AT5G59290.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA11G15020.1 (Glycine max), 5'ss of exon 3
CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatacaaaattgacatgctttt---caagtttgatcatatttttgaaggtttcgttttattcttcag-----------------
 | || ||||| ||||||||  | ||||||||||| ||||||||||||||| | |||||||   | ||||||||||| || ||||||||| |   |  |  ||    || ||||    |  |||| |  | ||||      ||   || |  |    |                  
TCTAACATGAGAATCTTGATTACGGGAGGAGCTGGATTCATTGGTTCTCACCTAGTTGATAGATTGATGGAAAATGAAAAAAATGAGgttagctaattagtttattgtgtttttgagtagttttgtttttcttttcagcaattctattatgcttacaaaacataacttctaatcag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G04500.2 (Glycine max), 5'ss of exon 4
CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgt-------ttgtataca-----aaattgacatgcttttcaagtttgatcatatttttgaaggtttcgtttt-attcttcag----------------------------------------------------------------------------------------------
 |||| ||||| |||||| |  ||||||||||||| |||||||| |||||||| ||||| |   | ||||||||||| || ||||||||       || | ||       | | ||  ||  || | | |||   ||||  ||||   |  ||  |    ||     |                                                                                               
TCCAACATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGGTCTCACTTAGTTGACAGATTGATGGAAAATGAAAAAAATGAGgtaagagggttatctatttgctcataatgttatatttctgatgttcactcatgattttactgactttatacagatggcataacttgctatcatcctatatgtgataaataagatacagcatatagaactaagtttgatttgataaaagttctgccacaaaatctttgtttaatcag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G40960.1 (Glycine max), 5'ss of exon 4
CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgt-------ttgtataca-----aaattgacatgcttttcaagtttgatcatatttttgaaggtttcgtttt-attcttcag-----------------------------------------------------------------------------------------------
 |||| ||||| |||||| |  ||||||||||||| |||||||| |||||||| ||||| |   | ||||||||||| || ||||||||       || | ||       | | ||   | ||| | | |||   ||||  ||||   | |||  |    || |   |                                                                                                
TCCAACATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGGTCTCACTTAGTTGACAGATTGATGGAAAATGAAAAAAATGAGgtaagtgggttatctatttgctcataatgttgtacttctgatgttcactcatgattttactgattttatacagatgccataacttgctatcatcctatatgtgataaataagatacagcatatagaactaagtttgacttgataaagttctgccacaatatctctgtgtttaatcag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G06990.1 (Glycine max), 5'ss of exon 3
CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatacaaaattgacatgctttt---caagtttgatcatatttttgaaggtttcgttttattcttcag-----------------
 | || ||||| || |||||  | ||||||||||| ||||||||||||||| | || ||||   | ||||||||||| || ||||||||  |   |  |  ||    || ||||    |  |||| |  | ||||  | | ||   || |  |    |                  
TCTAACATGAGAATTTTGATTACGGGAGGAGCTGGATTCATTGGTTCTCACCTAGTCGATAGATTGATGGAAAATGAAAAAAATGAGgtcagctgattagtttattgtgtttttgagtagttttgtttttcttttcaacgattctattatgcttacaaaacataacttctaatcag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0004g04390.t01 (Vitis vinifera), 5'ss of exon 3
CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatacaaaattgacatgcttttcaagtttgatcatatttttgaaggtttcgttttattcttcag-----------------------------------------------------------------------------------------
 |||||||||| || ||| || ||||||||||||| ||||||||||| || ||||| || ||||| ||||||||||| |||||||||||| | ||      ||  ||| ||| || ||| | |   | | | ||  | || |    ||  |  ||                                                                                          
TCCAATATGAGAATATTGGTCACTGGAGGAGCTGGATTCATTGGTTCACATTTGGTGGACAAGCTGATGGAAAATGAAAAGAATGAGgttagcat--ggttttttcat-cttatccagtctcac--tttctgtgctgattactgaataggcgacaaaaatataaaccataatcatatgcagcagctgacttcatacatactgtatgataagaagatcgtgtttgataatagttttacttccttag

upper sequence: AT5G59290.2 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S189_118V6.1 (Physcomitrella patens), 5'ss of exon 3
CCCAATATGAGGATCTTGATCTCTGGAGGAGCTGGCTTCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgt-ttgtatacaaaattgacatgcttttcaagtttgatcatatttttgaaggtttcgtttta--ttcttcag----------------------------
 | || ||||||||||||||| | ||||||||||| ||||| || ||||||||||| || | ||| |||||| | |  |  || || ||  ||  | |    ||||       |  |  ||| | |  | |   | |  |    |   |  |||||  |                            
GCGAAGATGAGGATCTTGATCACAGGAGGAGCTGGATTCATCGGGTCTCACTTGGTCGACAGGCTCATGGAAGAGGGCACAAACGAAgtactgcctcctttcttgatcaatgctggagatttcaactaagtgcagtaactaatctcgcaatttctttggcaataacaacaaaggatatattagtgac

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|164150900|gb|EL969320.1|EL969320
EST:     GATAAGCTTATGGAAAATGAGAAGAATGAG                         GTGGTTGTTGCTGATAACTATTTCACTGGCTCAAAAGAAAACCTCAAGAAG
genomic: GATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatac ... tattcttcagGTGGTTGTTGCTGATAACTATTTCACTGGCTCAAAAGAAAACCTCAAGAAG
EST: gi|86047698|gb|DR343453.1|DR343453
EST:     TCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAG                         GTGGTTGTTGCTGATAACTATTTCACTGGCTCAAAAGAAAACCTCAAGAAG
genomic: TCATTGGTTCTCACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatac ... tattcttcagGTGGTTGTTGCTGATAACTATTTCACTGGCTCAAAAGAAAACCTCAAGAAG
EST: gi|124781288|gb|EH871231.1|EH871231
EST:     CACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAG                         GTGGTTGTTGCTGATAACTATTTCACTGGCTCAAAAGAAAACCTCAAGAAG
genomic: CACTTGGTTGATAAGCTTATGGAAAATGAGAAGAATGAGgtttgtatac ... tattcttcagGTGGTTGTTGCTGATAACTATTTCACTGGCTCAAAAGAAAACCTCAAGAAG