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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatttattctagttttggtctggcattggctaatgaaatgcttggatccaaagctgattttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag

Basic information

species Vitis vinifera
transcript Vv04s0023g01030.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 5'ss of exon 5
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatttattctagttttggtctggcattggctaatgaaatgcttggatccaaagctgattttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag
 ||||||||||||||  | |   | ||||||||||| |||||||||||||||||||||||||| || | |||||||   |  || || | |||  |||||||  || |||  |    | |||||  ||   |  ||     |  || |  | |||| ||  ||     ||| ||  || |  ||| |   ||  | |   |                                        
TGAGATTGGTCATGGGCGTTTCCTTAGTTGCATGGGAGCTGTTTGGCATCCAGAATGTTTTCGCTGTCATGCTTGTAATCAACCAATATATGACTATGAGgt--aactcctttgtttacttatta-agcagttatcca-tgtctgcaagagtaatgtttctat-----gcttatagtcaaccaatat--atgactatgcag----------------------------------------

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G017845_T02 (Zea mays), 5'ss of exon 4
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatttattctagttttggtctg-gcattggc--taatgaaatgcttggatccaaagctgattttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag
 ||||||||||| ||  | | | | ||||||||||| |||||||||||||| |||||||||||||||| ||| ||| | |  || || | |||  |||||||     |   ||| |  ||| |   |||||   ||   | | || |  ||| |  |||||                                                                                   
AGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTTTGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGTCAACCTATATATGACTATGAGgtaacttttttgtttactttt-tagcagtttctttcaatgtactgaccttaaagccatgctgcag-------------------------------------------------------------------------------

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA16G25750.1 (Glycine max), 5'ss of exon 5
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatt----tattct-----agttttggtctggcattggctaatgaaatgctt---ggatccaaagctga---ttttccagtaattttg--gtggttctatgg----aatgcacttgctaattttcattttttcct--ttctttgatag
||||||||| |||||||||| ||||||||||||||| | |  ||||||||||||||||||| |||||| ||||||    ||||| ||   |||  |||||||   | ||  ||   | ||     || ||     |   |   | |   |     |    | || |||   | ||  | || |||   | ||  | |   |||    |  || | ||     ||| |   ||  |||  |  ||   ||||  ||| || | ||
CGAGATTGGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCAGAATGTTTTTGTTGCCATGCTTGCAAACTTCCAATCACTGATTATGAGgttagagtcttgtgttggttgctacatgcttcatgaaactcaattttataacacgtttaaacattcttctggaatttatagatgaagatctttaactttctttaccttaattttttgaggtcaatacgaatgaaaataatgcttaaatccttattcatttacag

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA02G06720.2 (Glycine max), 5'ss of exon 5
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatt----tattct-----agttttggtctggcattggctaatgaa-atgctt---ggatccaaagctga-----ttttccagtaattttggtggttctatggaatgcacttgctaattttcattttttc------ctttctttgatag
 |||||||| |||||||||| ||||||||||||||| | |  ||||||||||||||| ||| |||||| ||||||    ||||| ||   |||  |||||||   | ||  ||   ||||     || ||     |   |   | |   |     |  | || || |||   | ||  | |  |||     |||  |     |||   |  || | ||   |  |  || |  | |  | |  ||         ||| || | ||
TGAGATTGGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCAGAATGCTTTTGTTGCCATGCTTGCAAACTTCCAATCACTGATTATGAGgttagagtcttgtgttgattgctacatgcttcatgaaactcaattttataacatgttttaaacattcttctggaatttataaatgaagatctttaacttccttttccttaattttttgaggtcaatatgattgtatataatgcttaaatccatattcattcacag

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA12G19010.1 (Glycine max), 5'ss of exon 4
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatttattctagtttt----ggtctggcattg------gctaatgaaatgctt---ggatccaaagctga-----ttttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag------
 |||||| | |||||||||| ||||||||||||||| | |  ||||||||| ||||| ||| |||||| ||||||    ||||| ||   |||  |||||||   | ||  ||   ||||  | |  | ||             |||       |||    | || |||   | ||  | |  |||     |||  |     ||||  |  || | ||   |  |  || |  | |  | |  |    | | | |  |       
TGAGATTAGCCATGGAAGATTTTTGAGTTGCATGGGAGGTTATTGGCATCCGGAATGCTTTTGTTGCCATGCTTGCAAACTTCCAATCACTGATTATGAGgttagagtcttgtgttgattgctacatgcttcatgaaactcaatattataacacgctttaaacattcttctggaatttataaatgaagatctttaacttcctttttcttaattttttgaggtcaatatgattgtatataatgctcaaatccatagtcattcacag

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA11G06650.1 (Glycine max), 5'ss of exon 2
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccag--ttcagatttattctagttttggtctggcattggctaatgaaatgct--tggatccaaagct-gattttccagt-------aattttgg---tggttctatggaatgcacttgctaattttca--ttttttcctttctttgatag------------------------------------
 |||||||| || ||||||| ||| ||||||||||| | ||| |||||||||||||| ||  | |||| ||| ||    ||||| ||   |||  |||||||   |  | ||  |   | ||| || |  |  | || | |||  |   |||  |||     |   |  ||| || | ||||   ||       ||  |||    |  ||||  |      |  ||    | ||||  || ||||  || ||||  |                                     
TGAGATTGGCCAAGGAAGATTTTTAAGTTGCATGGGAGGTGTCTGGCATCCAGAATGCTTCTGCTGCCATGCATGCCATCTTCCAATCACTGATTATGAGgttagagactagagtcttgttttcttttgctgcttgtttcgcaaagctgaatttaattacaataagttgaaaccttgtttttttggtgaaagaaaaagttgaaaattattcttagcttcataaatgaaggtcttcaatttatttctcttgtttgtcaatctcaatatgattatgcttaattcgtccctttacag

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G38640.2 (Glycine max), 5'ss of exon 2
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatttattctagttttggtctggcattggctaatgaaatgcttggatccaaagctgattttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag
 |||||||| || ||||||| ||| ||||||||||| | ||| |||||||||||||| ||  | |||| ||| |||   ||||| ||   |||  |||||||   |  | ||   ||  || || |  |||    || |  |||   ||   |||      |    ||| |||        |  ||||||||     |   || |                                    
TGAGATTGGCCAAGGAAGATTTTTAAGTTGCATGGGAGGTGTCTGGCATCCAGAATGCTTCTGCTGCCATGCATGTCATCTTCCAATCACTGATTATGAGgttagagactag---agtcttgttttcttttgctgcttgatttgcaaaactgaatttaattacaataagttgaaacct---tccttttggtgaaaaaaaaaaaagt-----------------------------------

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 2
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccag--ttcagatttattctagttttggtctggcattggctaatgaaatgct--tggatccaaagct-gattttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag
 |||||||| || ||||||| ||| ||||||||||| | ||| |||||||||||||| ||  | |||| ||| ||    ||||| ||   |||  |||||||   |  | ||  |   | ||| || |  |  | || | |||  |   |||  |||     |   |  ||| || | ||||   || |        |||                                              
TGAGATTGGCCAAGGAAGATTTTTAAGTTGCATGGGAGGTGTCTGGCATCCAGAATGCTTCTGCTGCCATGCATGCCATCTTCCAATCACTGATTATGAGgttagagactagagtcttgttttcttttgctgcttgtttcgcaaagctgaatttaattacaataagttgaaaccttgtttttttggtgaaagaaaaagtt----------------------------------------------

upper sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 5
CGAGATTGGTCATGGAAGATATTTGAGTTGCATGGGTGCTGTTTGGCATCCAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatccagttcagatttattctagttttggtctggcattggctaatgaaatgcttgg---atccaaagctgattttccagtaattttggtggttctatggaatgcacttgctaattttcattttttcctttctttgatag
 ||||| || |||||||| | | |||||||||||||||  ||||||||||| ||||||||  |||||  ||| ||||     |||||  | ||  |||||||||  || || || |  || | | |  || | || |     ||  |  |   | ||||      | |||   |  |||| |||                                                            
TGAGATAGGACATGGAAGGTTTCTGAGTTGCATGGGTGGCGTTTGGCATCCTGAATGTTTCTGTTGCAATGCATGTGATAAGCCCATCATAGATTATGAGgtccctatacatttta--ttaagtattattattgtatcctcctgattcttttgaagcttaacctgttcaagctttgttttacag------------------------------------------------------------

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|110720145|gb|EE095821.1|EE095821
EST:     CAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTGTTGAACATGAG                         TTTTCTATGTCCGGAAGTCACCCTTATCACAAATCATGCTACAAGGAACAA
genomic: CAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatcc ... tctttgatagTTTTCTATGTCCGGAAGTCATCCTTATCACAAATCATGCTACAAGGAACAA
EST: gi|46917880|gb|CN547209.1|CN547209
EST:     CAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAG                         TTTTCTATGTCCG
genomic: CAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatcc ... tctttgatagTTTTCTATGTCCG
EST: gi|46917879|gb|CN547208.1|CN547208
EST:     CAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAG                         TTTTCTATGTCCGGAAGTCACCCTTATCACAAATCATGCTACAAGGAACAA
genomic: CAGAATGTTTTCGTTGCCGTGCTTGTGGGCTTCCCATTTTTGAACATGAGgtccaaatcc ... tctttgatagTTTTCTATGTCCGGAAGTCATCCTTATCACAAATCATGCTACAAGGAACAA