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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   		29  
 5'  3'   		30  
 5'  3'   		31  
 5'  3'   		32  
 5'  3'   		33  
 5'  3'   		34  
 5'  3'   		35  
 5'  3'   		36  
 5'  3'   		37  
 5'  3'   		38  
 5'  3'   		39  
 5'  3'   		40  
 5'  3'   
41  
 5'  3'   		42  
 5'  3'   		43  
 5'  3'   		44  
 5'  3'   		45  
 5'  3'   		46  
 5'  3'   		47  
 5'  3'   		48  
 5'  3'   		49  
 5'  3'   		50  
 5'  3'   		51  
 5'  3'   		52  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgctggttcggtcaactttctttgactttcattttattctgatcataatgacatatggcttttgtttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA

Basic information

species Arabidopsis thaliana
transcript AT2G35630.1
intron # 21
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 21
------------------------------------------------------------------gtatgtgctggttcggtcaactttctttgactttcattttattctgatcataatgacatatggcttttgtttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
                                                                   ||  |  | |||   |   | ||  |    |    ||   |     |  ||||   ||     | |  ||| ||||| | |||||| |||||||||||||| ||||| ||||| ||||| || ||  |  | ||||||||||| || ||||| ||||||||  ||||   ||| |
gtaagagaaaacactatcggaagtccaaacagttcaatatccgtgaagatcctttagttatttacaataaataatagtttacttgcccttaatcaggtgatgttaagtaactgttgtaatt-tatgcctttctcttttatagCTATACAAAATAATGAAAGAGCACAAAAATCCAAAGGTGCTTAGCGAGGGTATTCTTTGGATGGTTTCTGCCGTTGAGGACTTTGGGATCTCCAATTTAA

upper sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GRMZM2G009849_T01 (Zea mays), 3'ss of exon 3
---------------------------------------------------------------------------------------------------------gtatgtgctggttcggtcaacttt----ctttgactttcatttta------ttctgatcata--atg---acatatggcttttg--tttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
                                                                                                         | ||||||    |||  || ||||     |||   ||    ||||        ||| | |||  |||   |  ||||  ||||   ||||||||||| |||||| ||||| ||||||||||||||||||||||||||||| ||  |  | |||||||| || || || || ||||||||  ||||   ||| |
gtaagagataccattagattattattgtttttgttcaaaaggtcctccacatttgttcaatcaacccaattaggtgattttatatgctggtccgcaataaattcagaatgtgcactgtcgaacatctttgcaattttattttgtgctttagatgcacactgcttatatgatgtataattatgagttttaattttgtagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGATGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA

upper sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GRMZM2G068755_T03 (Zea mays), 3'ss of exon 21
-------------------------gtatgtgctggttcggt-caactttctttgactttcattttattctgatcataatgacatatggcttttgtttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
                          | ||||||  || ||| ||   | |||  ||  | || ||   |   |  ||     ||  |  || | ||| ||||||| |||||| ||||| ||||||||||||||||||||||||||||| ||  |  | |||||||| || || || || ||||||||  ||||   ||| |
cactgtcgaacatctttcaattttattctgtgct--ttaggtgcacgctgcttccaccatgatgtttgacaactactatatttatgagttttatttttatagCTTTACAAAATAATGAAGGAGCACAAGAATCCCAAGGTTCTTAGTGAGGGTATTCTTTGGATGGTCTCTGCTGTGGAAGACTTTGGGATCTCCAATTTAA

upper sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: Vv10s0116g00460.t01 (Vitis vinifera), 3'ss of exon 12
-----------------------------------------------------------------------------------------------------gtatgtgctggt-tcggtcaactttctttgactt--tcattttattctgatcataatgacatatggct----tttgtttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
                                                                                                       | |    | | ||  |   |  |  |||  |   | || ||    || ||||| |    ||||| |     || ||| ||||||| ||||||||||||||||||||||||||| ||||| |||||||| ||| | || ||||||||||| |||||||| ||||||||||| |||| |||||
gtaagtcaagtttctatcgggcttgaagcttctgtttctctatttggtttgatataaaaacttccttagaattaatatttttatatagattgtgtctatactgaagcatagatatctattggccattgttgtttcagtaatcttgacttggtcatatttttctatggatgatgcttttttatagCTTTACAAAATCATGAAAGAGCACAAGAATCCAAAGGTCCTTAGTGAGGGCATCTTGTGGATGGTTTCAGCAGTTGAAGACTTTGGTGTTTCACATTTGA

upper sequence: AT2G35630.1 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: PP1S131_18V6.1 (Physcomitrella patens), 3'ss of exon 21
------------------------------gtatgtgctggttcggtcaactttctttgactttcattt----tattctgatcataatgacatatggcttttgtt-tgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
                               | | |      |||    | |||  |||  ||| | |     | || |  ||  ||        ||||  |||  ||||||||||||| || ||||| || |||||||| ||||| ||||| |||||||| |||   ||||||||| | ||  |||||||||| ||  |    | | || 
gtatgatttagcagttgttcatgtctttgattctatctgtactcgtggcatttttattggttttaaataggaatttttttgtctgaacatttcgcggctcatgtgatgtagCTTTTCAAGATTATGAAGGATCACAAGAACCCCAAAGTTCTGAGTGAAGGTTTGAGTTGGATGGTTACTGCGCTTGATGACTTCGGAATTGGGCATGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctttgactttcattttattctgatcataatgacatatggcttttgtttgtagCTTTTCAAAATCATGAAAGAGCACAAGAATCCCAAGGTTCTTAGTGAAGGCTTGTTATGGATGGTTTCGGCAGTTGATGACTTTGGTGTCTCACTTTTGA
                    ttctgat  putative branch site (score: 3)
                                          cttttgttt  putative PPT
        actttcattttatt  TA-rich tract