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

gtatcctaaccttagtttttgactgggattttagtggttgtagtagcaatacatgctttagtgctaacataataccacatggttttactgaagaaacattgacatcaaaatgtatgtatatgtcagGGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTTGAATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAG

Basic information

species Vitis vinifera
transcript Vv19s0085g00600.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os06g45590.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------gtatcctaacctta-gtttttgactgggattttagtggttgtagtagcaatacatgctttagtgctaacataatac---cacatg-----gttttactgaagaaacattgacatcaaaatgtatgtatatgtcagGGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTTGAATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAG
                                          | |   ||  ||    |||||||    | || | |  || || |     || ||  ||| | | |   ||||| |   ||| ||     ||||| || ||   |  |||             | |  || |||| || || ||||| || ||||||||  | | |||   ||| |||||||||||||| ||||| ||||| |||||||| ||||| || || |||||| |||||
gtaagaacatgaattcttcaggtctggttgaatccacggttttgtttaaaaattgtacttttgac--atacttgactccttatattcttgttatatagttttgggttgtaataattctcccacgtgctttagttttgctaaaattat-ttgttggtgcttctcctttccatttcagAGATCCCTCAGATATTCCTTGGGGAAACTTTGGAGCTGAATATGTTGTTGAATCATCTGGTGTTTTTACAACAACTGAGAAAGCATCAGCACACTTAAAG

upper sequence: Vv19s0085g00600.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g07490.1 (Oryza sativa), 3'ss of exon 6
gtatcctaaccttagtttttgactgggattttagtggttgtagtagcaatacatgct-ttagtgctaacataataccacatggttttactgaagaaacattgacatcaaaatgtatgtatatgtcagGGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTTGAATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAG
    ||   ||   | | | ||     | ||  ||   |||     || ||  | || ||||| ||  |||            ||  ||  |||||   ||| |  |          | | |  ||| || ||| |||| || ||||||||| | | |||   ||| ||||||||||||||||| || ||||| |||||||| || ||||| || |||||  | |||
----ccgtgcccctgctctcgatacacaattatgtttctgtgactacattaatttctgttagttcttgcat------------ttgcacctaagaat--ttgccccct---------tcttttccagAGATCCAGCAGATATTCCTTGGGGTAACTTTGGAGCTGAGTATGTTGTTGAATCTTCAGGTGTTTTTACAACAACTGAAAAGGCATCGGCACATTTGAAG
















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|71863317|gb|DT012372.1|DT012372
EST:     GAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAGTTACAAGCAAAAG                         GGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTCGA
genomic: GAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAGTTACAAGCAAAAGgtatcctaac ... tatatgtcagGGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTTGA
EST: gi|30131309|gb|CB916648.1|CB916648
EST:     GAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAGTTACAAGCAAAAG                         GGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTCGA
genomic: GAGTCCACTTTGGAAATCAATGGCAAGCAGATAAAAGTTACAAGCAAAAGgtatcctaac ... tatatgtcagGGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataccacatggttttactgaagaaacattgacatcaaaatgtatgtatatgtcagGGACCCATCAGAAATCCCTTGGGGTGATTATGGGATTGATTATGTTGTTGAATCTTCTGGAGTTTTCACAACAACCGAGAAGGCTTCTGCACACATAAAG
                         cattgac  putative branch site (score: 3)
                                   aaaatgtatgtatat  TA-rich tract