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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgaatctctggcgctttaattccgtttggatttgtttcaatttagtgcgtaactgactttcttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGG

Basic information

species Vitis vinifera
transcript Vv18s0001g12560.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 2
---------------------gtgtgaatctctggcgctttaattccgtttgg------atttgtttcaatttagtgcgtaactgactttcttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGG
                     |  ||| | | |   | |||  | |  |||||       ||| ||    || |   | | | ||   ||  | |  ||||  ||| | ||||||||||| || |||||||| ||||||||||| |||||||||   ||||||||| | || || || ||||| ||||||
gtatgtttgaatcatgaatgagaatgagtttgtattgatttgttacattttggttccttgttttttatgtttcacaacttcattgtactttgttgtgcagTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATAGCCAGTGGTCAGATTGCCGAGTACATAGGGCGCAAAGGG

upper sequence: Vv18s0001g12560.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 2
----------------------gtgtgaatctctggcgctttaattccgtttgg------atttgtttcaatttagtgcgtaactgactttcttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGG
                         ||| | | ||  | |||  |||  |||||       ||| ||    || |   | | | ||   ||  | |  ||||  ||| | ||||||||||| || |||||||| ||||||||||| ||||| ||    ||||||||| |||| || || ||||| ||||| 
caccattagaccaaccttatatcactgagtttgtgttgatttgtttcattttggtttcttgttttttgtgtttcacaacttcattgtactttgttgtgcaGTTTTCTTTGTTTGGTTCTTTGTCCAATGTGGGTGCCATGGTTGGAGCAATTGCTAGTGGTCAGATTGCTGAGTACATAGGGCGCAAAGG-
















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|110687404|gb|EE064795.1|EE064795
EST:     CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAG                         TACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
genomic: CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAGgtgtgaatct ... cttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
EST: gi|110701968|gb|EE080148.1|EE080148
EST:     CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAG                         TACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
genomic: CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAGgtgtgaatct ... cttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
EST: gi|110699858|gb|EE077237.1|EE077237
EST:     CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAG                         TACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
genomic: CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAGgtgtgaatct ... cttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
EST: gi|110732428|gb|EE107716.1|EE107716
EST:     CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAG                         TACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA
genomic: CGCCTACGCAATCCGCCATCACCAAGGATCTCGGACTAACGGTCTCGGAGgtgtgaatct ... cttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattccgtttggatttgtttcaatttagtgcgtaactgactttcttggatcagTACTCTCTATTTGGTTCTTTATCAAATGTGGGCGCCATGGTTGGGGCAATAGCCTCCGGTCAGATTTCTGAATATATTGGGCGAAAAGGG
                                   aactgac  putative branch site (score: 2)
                                         ctttctt  CT-rich tract
              atttgtttcaattta  TA-rich tract