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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccattaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT

Basic information

species Arabidopsis thaliana
transcript AT3G26440.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA18G01710.1 (Glycine max), 3'ss of exon 10
gtatggatctcatt-tgtcaaaaccaat-acaataagta-ttcatactctcttgatccattaagttttgcacggttccttat---cagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
||| | | ||  |  |||    | || | ||| ||  || || | |           ||||  | | | ||| |||   ||    ||||||| | ||||||||||||||||| ||||| ||||| |||||||| |||||||||||||||||||||                                 
gtaagtagctgctgatgtatttatcatttacattatctagtttacaggactgcatctcattgtgctat-cactgttatataaatgcagGTTTGTTGAGATTATGGCTCCAGTGTTCTCAAGAGATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA11G37770.1 (Glycine max), 3'ss of exon 10
gtatggatctcatt-tgtcaaaaccaatacaataagta-ttcatactctcttgatccattaagttttgcacggttcctt---at-cagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
||| | | ||  || |||    | || |||| ||  || |  | |           ||||  | |  |||| |||  |    || ||||||| | ||||||||||||||||| |||||  |||| |||||||| |||||||||||||||||||||                                 
gtaagtagctgcttatgtatttatcattacattatatagtctacaagactgcatctcattgtgcta-gcactgttaatacaaatgcagGTTTGTTGAGATTATGGCTCCAGTGTTCTCGCGAGATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G14040.1 (Glycine max), 3'ss of exon 10
gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttg-atcca-ttaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
||| | |||   |    ||  |    |  | ||   |  |||||     || ||||| ||| ||| |||| |         ||| ||| | ||||||||||||||||| || ||  |||| |||||||||||||| |||||||||||||||                                 
gtaagcatcagttgaagcattatttttgtattatccacccataccaaactgtatccaattatgttatgcatg---------cagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCGTTGTGTCTGGCATATGATTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA05G30830.1 (Glycine max), 3'ss of exon 10
gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttg-atcca-ttaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
||| | |||   |    ||  |    |    ||  ||  |||||     || ||||| ||| ||| || | |         ||| ||| | ||||||||||||||||| || ||  |||| ||||||| ||||||||||||||||||||||                                 
gtaagcatcagttgaagcattatttttgtcttatctacccataccaaactgtatccaattatgttatgtatg---------cagATTTGTTGAGATTATGGCTCCAGTGTTTTCACGAGATGCATGGCATTGTGTGTGGCATATGATTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G14050.1 (Glycine max), 3'ss of exon 8
-----------gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccattaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
            ||  ||| |  ||| |         |||||||  |   |||  |   ||     |||      | |   ||  | |  ||||||| | ||||||||||||||||| || ||  || | |||||||| |||||||||||||||||||||                                 
gtaagtaactgttacagattt--ttttttgggggggttacaatattttcccatctttagttagctgattccaccattct--gtaacatg-cagGTTTGTTGAGATTATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 8
-------------gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccattaagttttgcacggttccttat-cagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
               |    | | |||| |      ||     | || ||||    |    || ||    | | |    ||   |     || ||||||| | ||||| ||||||||||| || ||  || | |||||||| |||||||||||||||||||||                                 
gtaagtaactgttaaagaatttttatttttttttggcaggggtacaa-tattttcccatctttaatgagctgattccaccattctgtaacatgcagGTTTGTTGAGATAATGGCTCCAGTGTTTTCACGAAATGCATGGCGCTGTGTGTGGCATATGATTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 5
-------gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccatta------agttttgcacggttccttatc-------agGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
       |||  | | | |||| |      || | | |      | |||  |||    ||  ||||      |  ||   |   |||||| ||       |||||| | ||||| |||||||| || || |||||||| |||||||| ||||||||||||||| |||||                                 
ttgagcagtactgttgttattttttctgttcattcccact--cctgcatggtctgacaatggattagaaacaaaattattagttttccttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv13s0106g00570.t01 (Vitis vinifera), 3'ss of exon 1
-------------------------gtatggatctcatttgtcaaaaccaatacaataagtattcatactctctt-gatcca---ttaagttttgcacggttccttat-cagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
                          | |   | |   |  |||   ||| | |   | |   | | | |   || ||  ||   |||    ||   |  ||||  || ||||||| | ||||| |||||||| || || |||||||| |||||||| ||||||||||||||| |||||                                 
gtatgaaaagctttgagcaatactattgttattttttctgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagttttccttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 10
----------------------gtatggatctcatttgt---caaaaccaatacaataagtattcatactctctt-gatcca---ttaagttttgcacggttccttat-cagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
                       ||| | | |  |||||   ||   ||| | |   | |   | | | |   || ||  ||   |||    ||   |  ||||  || ||||||| | ||||| |||||||| || || |||||||| |||||||| ||||||||||||||| |||||                                 
gtatgaaaagctttgagcagtactattgttattttttgtgttcattcccactcctgcatggtctgacaatggattagaaacaaaattattagtttttcttttccaaatgcagGTTTGTTGAGATCATGGCTCCTGTATTTTCTAGAGATGCATGGCGGTGTGTGTGGCATATGCTTCAG---------------------------------

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ04271 (Selaginella moellendorffii), 3'ss of exon 5
gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccattaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
   |   | |  | | | |    | ||  |     | ||| |    ||| |  | |||    |   |   |||   || ||| ||| | ||||| |||||||||||||| ||  |  |||| ||||| |||||||||||||||||||| ||||||||||| || || ||||| || ||||||
--gtaagttttgtgt-ttagtttctattta-----tcttccttgcttctag--ctatttctatcgactgagtttgcta-cagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT

upper sequence: AT3G26440.4 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: EFJ32148 (Selaginella moellendorffii), 3'ss of exon 6
gtatggatctcatttgtcaaaaccaatacaataagtattcatactctcttgatccattaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
   |   | |  | | | |    | ||  |     | |||||    ||| |  | |||    |   |   |||   || ||| ||| | ||||| |||||||||||||| ||  |  |||| ||||| |||||||||||||||||||| ||||||||||| || || ||||| || ||||||
--gtaagttttgtgt-ttagtttctattta-----tcttcattgcttctag--ctatttctatcgactgagtttgcta-cagATTTGTGGAGATCATGGCTCCAGTTTTTTCGCGCAAGGCCTGGCGCTGTGTGTGGCATATGATTCAAAATGACTTGGTGCATGGCTGGGGACTAGACTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaataagtattcatactctcttgatccattaagttttgcacggttccttatcagGTTTATAGAGATTATGGCTCCAGTTTTCTCTAGAGAGGCATGGCGTTGTGTGTGGCATATGATTCAGAATGACTTGGTTCACGGTTGGGGTCTTGACTTT
                   tcttgat  putative branch site (score: 4)
                                            ttccttatc  putative PPT
                            attaagtttt  TA-rich tract