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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatggttattgttttatgctatttctccataaggtctgcaatttataatttgttttgattttcagctaaaagttacattgttgtttcttctttgcagGCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATGAAAGTTGGAAATTCCATCCGCAGTTGTGGTGTTAATGAA

Basic information

species Vitis vinifera
transcript Vv02s0025g01410.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G43470.5 (Glycine max), 3'ss of exon 2
-----gtatatggttattgttttatgctatttctccataaggtct----gcaatttataatttgttttgattttcagctaa--aagttacattgttgtttcttcttt----gcagGCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATGAAAGTTGGAAATTCCATCCGCAGTTGTGGTGTTAATGAA
     || |    |||  | || |  ||  |  ||   ||  | |     || |   ||||   |||||  ||| | || |      | |  | ||||||||| |||      || | || || ||   ||||||||| || ||||||||||||||| | |||||||||||||| ||||| |||||||| ||||||  |   |||
gtgaagtct-catttaccgattaagtcttgtgttctggaaattttcttgacattgcttaatcatttttggcttttaactgacttgaatgctcttttgtttcttttttctgcatagCCGGGCAAGTACAAGTGGCTAACATACAAAGAAGTATATGACCAGGTGATGAAAGTTGGGAATTCTATCCGCAGCTGTGGTTATGGAGAA

upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G02030.1 (Glycine max), 3'ss of exon 2
---------------------------gtatatggttattgttttatgctatttctccata--aggtctgcaattta-taatttgttttgattttcagctaaaagttacattgttgtttcttctttgcagGCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATGAAAGTTGGAAATTCCATCCGCAGTTGTGGTGTTAATGAA
                           ||    |  | ||  || |   |  ||  ||||    ||  |  || | | | |  || | |   | ||  ||     |  |  | || || |  || |  || | || || ||   ||||||||| || ||||||||||||||| | |||||||||||||| ||||| |||||||| ||||||  |    ||
gtgaagtctcgtttacttaagtcttgtgttctggagtttttcttgacattgcttgaccatttttggcttttaactgacttaaatgctctctctctct-ctctctctctctctctttttgcgactctatagCCAGGCAAGTACAAGTGGCTAACATACAAAGAAGTATATGACCAGGTGATGAAAGTTGGGAATTCTATCCGCAGCTGTGGTTATGGAAAA

upper sequence: Vv02s0025g01410.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G36910.1 (Glycine max), 3'ss of exon 2
gtatatggttattgttttatgctatttctccataaggtctgcaatttataatttgttttgattttcagctaaaagttacattgttgtttcttctttgcagGCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATGAAAGTTGGAAATTCCATCCGCAGTTGTGGTGTTAATGAA
                 ||  || | | ||  |    |||   | || | |||  |    || |   || ||   ||   |  |   | ||  |||| || |||| || ||   ||||| |||||| |||||||| ||||||   |||||||| ||||| |||||||||||   |||||||      || 
----------------gtaaactctctttctttc---tctttcacttgtcatt-atgaaaatgtgttgccaac--ttttgtcatatatactcttttgtagCCTGGCAAGTACAAGTGGCAAACTTACAAAGAAGTGTATGACTTGGTGATGAATGTTGGCAATTCCATCCGTGCTTGTGGTTACGGGGAG

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|352781555|gb|FQ468399.1|FQ468399
EST:     AATATCCTGGAAATCGCATGCTTGGTCAACGAGAGATTGTGAATGGGAAG                         GCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATG
genomic: AATATCCTGGAAATCGCATGCTTGGTCAACGAGAGATTGTGAATGGGAAGgtatatggtt ... ttctttgcagGCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttataatttgttttgattttcagctaaaagttacattgttgtttcttctttgcagGCTGGTAAATATGTGTGGCTAACTTATAAAGAAGTATATGACAAAGTGATGAAAGTTGGAAATTCCATCCGCAGTTGTGGTGTTAATGAA
                     agctaaa  putative branch site (score: 3)
                                   ttgttgtttcttcttt  putative PPT
     atttgttttgatttt  TA-rich tract