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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaagagattacacaattgtcccttgcatcataattttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagcattcactttgctcataacttgcag

Basic information

species Vitis vinifera
transcript Vv09s0002g01560.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g01560.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G056773_T01 (Zea mays), 5'ss of exon 3
TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaagagattacacaattgtcccttgcatcataattttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagca-ttcactttgctcataacttgcag
 |   ||||    ||||||| | ||  ||  | || || || |||||||| |||||||| |||||||| || |||||||||||| ||||||| || |||||||    || |    ||        || |||  | |   |  |||  |  |  ||| || |  || | |    || | |||| |  | |  | |    | |  |||||    ||| |    || ||||      |  | | |||
GTTCTAACACAACTTATTGGGCATCATGTCAACGTGCATGTGAAAAATGGCTCTATAATATCTGGAATTTTCCATGCAACAAACTCTGACAAAGACTTCGgtacacctctatctcttttttctcagttcctgacgt---agcttttaa--gaatcctttaaagttttct----attcgagcactgtt-tcctgaattgtattgtcatattcctttcaattcttaacttcaagattctcctacag

upper sequence: Vv09s0002g01560.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM5G829738_T01 (Zea mays), 5'ss of exon 3
TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaagagattacacaattgtcccttgcatcataattttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagcattcactttgctcataacttgcag
 |   ||||    ||||||| | ||  ||||| || || || || || || |||||||| |||||||| || |||||||||||| ||||||| || || ||||    || |    ||   |    || |||  |||     || || ||      |||| ||  | ||  |   |   ||||    | || | |    | |   ||||    ||  |   || ||||      |  | | |||
GTTCTAACACAACTTATTGGGCATCATGTGGACGTGCATGTGAATAACGGCTCTATAATCTCTGGAATTTTCCATGCAACAAACCCTGACAAAGACTTTGgtactcctctatttttttttct-cagttcctgacatagcttttatgaat------cctttacagttttcta---tttgagcaccgtttttgtgaattgtattggcatattcattcaatacttaacttcaagattctcctacag

upper sequence: Vv09s0002g01560.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA16G00780.1 (Glycine max), 5'ss of exon 2
TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaaga-gattacacaattg--tcccttgcatcataatt--ttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagcattc-actttgctcataacttgcag--------------------
|||||||||||  ||||||| |  |  |||||||||||||| |||||||||||||||   |||||||||||||||||||||||  ||||||| ||||| |||||| |     | | ||    |||||  |   |   ||         |  ||||  ||   |||   | |||     || | |||  | | |||||||    | |  | ||  |  ||  || |||  || ||  | |   |||                        
TTAACAACATGCCTTATTGGGCAGCATGTGGAAGTCCAGGTGAAAAATGGATCTATATACTCTGGAATATTTCATGCAACAAATTCTGACAAAGATTTTGgtatgttctgttatgcttgtgtaattgatttgatgatattgagggcaataatattttttgtattgtagtgcttaattgattccagct-tccagttttcattattatatttatggatcttacagaatttgacattttttactgcttatgtcatcattactgttctcttag

upper sequence: Vv09s0002g01560.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G42230.1 (Glycine max), 5'ss of exon 3
TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaagagattacacaattgtcccttgcatcataattttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagcattcactttgctcataacttgcag
 ||||||||||| ||||||| |  |  |||||||||||||| ||||||||||| |||   |||||||||||||||||||||||| | ||||| ||||| |||||| |       |||     |   |   ||   |||||  |         ||   ||||  || ||||| | |  ||   |  |    |  |      ||||                                       
GTAACAACATGTCTTATTGGGCACCAGGTGGAAGTCCAGGTGAAAAATGGATCCATATACTCTGGAATATTTCATGCAACAAACACAGACAAAGATTTTGgtatgttctgttgcatttttttaaattgattttggtcata--tcgaagactattgttttgaa-ttatttcacagtt-aactgaagcaaaatagataagcatgct---------------------------------------

upper sequence: Vv09s0002g01560.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA15G03190.1 (Glycine max), 5'ss of exon 3
TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaa-gagattacacaattgtcccttgcatcataattttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagcattcactttgctcataacttgcag
 ||||||||||| ||||||| |  |  |||||||||||||| ||||||||||| |||   |||||||||||||||||||||||| | ||||| ||||| |||||| ||    |   ||     ||||    |||  ||||| ||    | || |    | |||  |  ||     |   |  | || |||| |   | ||||                                          
GTAACAACATGTCTTATTGGGCACCAAGTGGAAGTCCAGGTGAAAAATGGATCCATATACTCTGGAATATTTCATGCAACAAACACAGACAAAGATTTTGgtatgttttgttgcattttttttattgatttttg--tcata-ttcaagactgttattttggacaattatttcttttaggaata-ttttgttatttcctatttct----------------------------------------

upper sequence: Vv09s0002g01560.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA07G04060.1 (Glycine max), 5'ss of exon 3
TTAACAACATGTTTTATTGGACTTCCCGTGGAAGTCCAGGTCAAAAATGGATCTATAATTTCTGGAATATTTCATGCAACAAACGCTGACAAGGATTTCGgtatggttcaaga-gattacacaattgtcccttgcatcataa----ttttgtattggttcccttgaccttctttcaaaatccaagcaattctgttttcagccatttgctcataaaggttttagcattc-actttgctcataacttgcag--------------------
|||| ||||||  ||||||| |  |  |||||||||||||| |||||||||||||||   |||||||||||||||||||||||  ||| ||| ||||| |||||| |     | | ||     ||||        ||  | |      |   |||  ||   |||   ||||      || | |||  | | |||||||    | |  | ||  |   |  ||  ||  || ||  | | | |||                        
TTAAAAACATGCCTTATTGGGCAGCATGTGGAAGTCCAGGTGAAAAATGGATCTATATACTCTGGAATATTTCATGCAACAAATTCTGGCAAAGATTTTGgtatgttctgttatgcttgtgttattgatttgatgatattgaggggaataacattttttgtattgtagttctcaattgattccagct-tccagttttcattattatatttatggatcatagagagtttgacattttttacagcttatgtcatcattactgttcttttag

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|33402583|gb|CF208210.1|CF208210
EST:     TCATGCAGCAAACGCTGACAAGGATTTCG                         GTATTGTTTTGAAAATGGCTCGTTTGACAAAGGATGGTCCTGTCCGTGGAC
genomic: TCATGCAACAAACGCTGACAAGGATTTCGgtatggttca ... taacttgcagGTATTGTTTTGAAAATGGCTCGTTTGACAAAGGATGGTCCTGTCCGTGGAC