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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgcattttaatctccttattcctatctagtgaagaactatcttttgctagatatgacaacccttgttttaatatattgatatcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG

Basic information

species Vitis vinifera
transcript Vv10s0071g00210.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 15
-----------gtgca-ttttaatctccttattcctatctagtgaagaactatcttttgctagata------tgacaacccttgttt---taatatattgatatcaaaatttctt--tttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
           | | | | | |||      |    |||  | ||      ||||||     | | |      |||  |||  ||  |    || || |   |||  |  |   ||  |||||||||||||| |||||||| |||||||||  || |||||| ||||| ||||| |||||||| || |||||||||||||||
gtatggatcctgcggagtctgaatgcttaaacaagtattgaatgtccttgtatcttaaatgaaagaaactattgaatacctctgaatgccaaacatctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 13
gtgcattttaatctccttattcctatctagtgaagaactatcttttgctagatatgacaacc-cttgttttaatatattgat-atcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
     ||  ||  |  |   |   ||  |   || | ||||  ||  ||  | |    || |  ||| ||     | ||| |  |  | | || | ||||||||||||||||||||||||||||| |||  || |||||| ||||| ||||||||||| || || ||||||||||| |||
--aagttgaaagttgatgtctaaaatgaaaaaaaaagctattattacctccaaaaactaaacatttgcttatgcctgttgcttgtttacaattttgtttcagGAATATATCCAAGATGGAATTGATTGGGCTAAAGTTGAATTTGAAGACAATCAAGATTGCCTTAATCTTTTTGAAAAG

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 15
gtgcattttaatctccttat-tcctatctagtgaagaactatcttttgctagatatgacaacc-cttgttttaatatattgat-atcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
  | | |  |||  | || | |   ||  |   || | ||||  ||  ||  | |    || |  ||| ||     | ||| |  |  | | || | ||||||||||||||||||||||||||||| |||  || |||||| ||||| ||||||||||| || || ||||||||||| |||
--gtactg-aatgcctttgtataaaatgaaaaaaaaatctatgattacctccaaaaactaaacatttgcttatgcctgttgcttgtttacaattttgtttcagGAATATATCCAAGATGGAATTGATTGGGCTAAAGTTGAATTTGAAGACAATCAAGATTGCCTTAATCTTTTTGAAAAG

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 13
--gtgcatttt----aatctccttattcctatc--tagtgaagaactatcttttgctagata----tgacaacccttg---ttttaatatattgatat-caaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
   || ||  |    | |||   |  | | |    || ||| |  || |    ||   || |    |||  |||  ||     | ||||| |   ||| ||     |   |||||||||||||| |||||||| |||||||||  || |||||| ||||| ||||| |||||||| || |||||||||||||||
gtatggatcctgcagagtctgaatgcttcaacaagtattgatgtccttttaaatgaaggaaaatattgaatacctctgaaagctaaatatctgcctatgcacgcggttgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
---------------------------------gtgcat---tttaatctccttattcctat-ctagtgaagaactatcttttgctagatatgacaacccttgttttaatatattgatatcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
                                 |  |||   || ||| | ||   || |    |     |||||||     |   || |   ||   |  |  |  ||  |||| || |      | || ||||||||||||||||| ||||| ||||||||||  || ||||||||||||||||| ||| | ||||| | ||||||||| |||
gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagct-caactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG

upper sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 15
gtgcattttaatctccttattcctatctagtgaagaactatcttttgctaga-------------tatgacaac--ccttgttttaatatattgatatcaaaat-ttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
  | |   ||| | ||||  | ||||        | | ||| | | |  |||              |   || |  ||  ||| | |   ||| ||||     | |||| || ||||||||||| || ||||| ||||||||||  || ||||||||||||||||| ||||| ||||| | ||| ||||| |||
--gtaacgtaaacccctttctgctatgggtccttgtagtatatctaggcagagcatggacatgtacacaccagctaccgagttctgagggatttatatttctgtcttctcttccagGAATATATTCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAGAATGTCTTAGTCTCTTTGAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctagatatgacaacccttgttttaatatattgatatcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG
                             tattgat  putative branch site (score: 3)
                                           tttctttttc  putative PPT
                  ttgttttaatatattg  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgcattttaatctccttattcctatctagtgaagaactatcttttgctagatatgacaacccttgttttaatatattgatatcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG

gtgcatt
- - - - - - - - - - - - - - - -gaagaac
- - - - - - - - - - - - - - - - - - - - -cttttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaaat