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'   		23  
 5'  3'   		24  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC

Basic information

species Vitis vinifera
transcript Vv05s0020g01780.t01
intron # 22
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgat-acaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
                        || || |  |  |||| ||||  ||        ||| |       ||||    |  | || |   ||   |   |  |  || |||||||||| |||||||| ||||| || ||||||||||| ||||| ||||| |||||||  || |||||||| || |||||||||||||| |||||| 
------------------------gtatgctacaccacaattgttcctgaaca---atttaagcccctttcttttttgcattttaacagctt-gtgtctattacagTTATGCATGGTGCACAAACTCGGATACGGAAACTGGGATGAACTGAAAGCAGCCTTTCGCATGTCGCCCTTGTTCCGATTTGATTGGTTTGTGAAGTCTA

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
               ||  |||||  |  |   ||   | | |  |      |||||||        |  |  |  || || | | |    || | ||||    | | |||||||| || || ||||| ||||| ||||||||||| ||||| || || || ||||  || || ||||| || |||||||||||||| |||||  
-------------gtatg-ctcta--tcataccatctcactttctgcacacatttgtttt----caaacgtgacatgtctaatta-gttgtcacatttca----gCTTTGCATGGTGCATAAGCTTGGTTATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGCATGTCGCCTTTGTTCCGATTTGATTGGTTTGTCAAGTCCA

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GRMZM2G010085_T02 (Zea mays), 3'ss of exon 14
gtgagaattgcaatcatctctctagtttgtttgatacaa-atgttg-gtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
                        || |||||    ||  |||||  |||| ||| ||| |     |  ||     |  |       ||     | | | ||    | | |||||||| ||||||||||||||||| ||||||||||| ||||| || || || || |  |||||||||||||| |||||||||||||| |||||  
------------------------gtatgtttttctcaccatgttatgtgtatttatgtatttgagtacatgacatggctactaagctggagttacattcca----gCTTTGCATGGTGCACAAACTTGGATATGGAAACTGGGATGAACTGAAAGCTGCCTTCCGTATGTCTCCCTTGTTTCGATTTGATTGGTTTGTGAAGTCCA

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
||   ||||  |    | ||  |  ||| |||  | | |    | |     |  |  ||  | || | | |||  |    |||     ||  | | ||     ||||||||||||| ||||||||||| |||||||||||||||||| | |||||||||||||| || || ||||||||||| |||||||||||||| || ||||
gtacaaattttatgtctttcaattttttttttctttctaggtctagctccatcatcctt--ctatcggt-ttctaaaaaaattg----ctataaattt---acagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCAGCATTTCGAACATCACCCTTGTTTCGATTTGATTGGTTTGTCAAATCTC

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
                    |  | ||| |||  |  |  | | | |   |  |  ||  | |  |    |||  |    |||     ||  | | ||     ||||||||||||| ||||||||||| |||||||||||||||||| | |||||||||||||| || || ||||||||||| |||||||||||||| || ||||
-------------------gtacaatttttttt-tctaggtctagctccatcatccttctatgggt----ttctaaaaaaattg----ctataaattt---acagATATGCATGGTGCACAAACTTGGCTATGGGAACTGGGATGAGTTAAAGGCAGCATTTCGAACATCACCCTTGTTTCGATTTGATTGGTTTGTCAAATCTC

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA07G38050.1 (Glycine max), 3'ss of exon 22
---------------gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgttt-ttgtttgacgattgatcttccgagtgta---ttcatgcctccatacttca---------tgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
                      ||   ||  |  | | | ||| |||  |     |  || |  |||  ||||||         | ||||||    |    |  ||  | |  ||||||         || |||| || ||| ||||||||||||| ||||| || |||||||||||||||||||| ||||| |  || ||||||||||| |||||||||||||| |||||||
gtgtgaaatttatttccttttgtttttatttttgcccaaatttatttcttttcgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttttctgacttcacttaaaacttgcagATTTGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGCTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgatacaaat------------gttggtgt----gtttttgtttgacgattgatcttccgagt-gtattcatgcct-------ccatacttca----tgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
||| |||||  | |    | | |  ||  |||    |||||            |||  |||     |  ||||||         | ||||||   | |||| ||  |       |  ||||| |    || ||||||| ||| ||||||||||||| ||||| || ||||||||| |||||||||| ||||| |  || ||||||||||| |||||||||||||| |||||||
gtgtgaattttatttccttttgtttttatttttgcccaaattcatttctttttgttcatgttcagttccttgtttagtctggtgttttccgaacagaattcttgtgttgtctgactttacttaaaacttgcagATATGTATGATTCACAAACTTGGCTATGGTAATTGGGATGAGTTGAAGGCAGCTTTTCGAATGTCGCCCTTGTTTCGATTTGATTGGTTTGTCAAGTCTC

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
||  ||  |  | | |||   ||  ||  |  |||   | ||||  ||| || || |   | |||  ||   ||   || | |  ||  |             ||||||||||||| || |||||||| ||||| |||||||||||||| |||||||| ||||| || || ||||||||| | ||||| ||||||||||| || |
gtatgacatctatttatcaaactctttgttgagatttcattgttattgttttattctaatatgat--attgacccgatgaacttgtgattat----------cagATATGCATGGTCCATAAACTTGGGTATGGAAACTGGGATGAGCTAAAGGCAGCGTTTCGGACATCCCCCTTGTTTAGGTTTGACTGGTTTGTAAAATCCC

upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT3G06400.3 (Arabidopsis thaliana), 3'ss of exon 22
gtgagaattgcaatcatctctctagtttgtttgatacaaatgttggtgtgtttttgtttg-acgattgatcttccgagtgtattcatgcctccatacttcatg-tagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
         | |    | | ||| ||||   |  |     ||||  ||| |  ||  ||  |  ||  |  ||  || |||       | |   |  |  |    |||| |||||| ||||||||||||| |||||||| ||||||||||| |||||||||||| | || ||  |  ||||  | ||||| |||||||| || || |
---------gtatgtctttttctcgtttccct--ttttgctgttc-tgtctcattaattatatcatgaagtttttgactgttgaggaactttggtggtgaaaaacagATCTGCATGATTCACAAACTTGGTTATGGGAATTGGGATGAGCTAAAGGCAGCATTTAGGACATCGTCTGTGTTCAGGTTTGACTGGTTTGTGAAATCCC

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|254916620|gb|GR905446.1|GR905446
EST:     GGGAAGTTGTACAATGAAGAATGCGATCGTTTTATG                         ATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCA
genomic: GGGAAGTTGTACAATGAAGAATGCGATCGTTTTATGgtgagaattg ... cttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCA
EST: gi|30299492|gb|CB976286.1|CB976286
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGCGATCGTTTTATG                         ATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGCGATCGTTTTATGgtgagaattg ... cttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCA
EST: gi|30297391|gb|CB974185.1|CB974185
EST:     ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGCGATCGTTTTATG                         ATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCA
genomic: ATGGGCAAAACAAAGGGAAGTTGTACAATGAAGAATGCGATCGTTTTATGgtgagaattg ... cttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgtttgacgattgatcttccgagtgtattcatgcctccatacttcatgtagATATGCATGGTTCACAAACTTGGATATGGGAACTGGGATGAGCTGAAGGCAGCATTTCGCACTTCTCCCTTGTTTCGTTTTGATTGGTTTGTAAAGTCTC
            gattgat  putative branch site (score: 4)
                             tattcat  TA-rich tract