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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGTGAACAATGTTGACGTCGTATACACTCCATGGCACAATCTGAAGAAAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttctttattttcttctgctctgtgctttgcaacttttatttctttttggtgagcatgcatatgaaagatagatactgatgtagtttttgtgcttaatttag

Basic information

species Vitis vinifera
transcript Vv04s0008g03810.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g03810.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G157332_T05 (Zea mays), 5'ss of exon 3
CAAGGTGAACAATGTTGACGTCGTATACACTCCATGGCACAATCTGAAGAAAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttctttattttcttctgctctgtgctttgcaacttttatttctttttggtgagcatgcatatgaaagatagatactgatgtagtttttgtgcttaatttag
 || || || ||  |||| || || || ||||||||| ||||| ||||||| ||  |||| |||||||| ||||||||||||||| ||||  | ||| |||||||     | |||  ||| | ||      ||  |||  ||||   |    |  ||  |||     |     ||  ||  |||   ||||| ||||||| ||  | 
TAAAGTCAATAACATTGATGTAGTTTATACTCCATGGTACAATTTGAAGAAGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagc--tcattaactttttctta----ttcacaatgtttacagcaggattatgtacatatgcttttgt-atgtatcttgacaaagtttatgtgctttatggat

upper sequence: Vv04s0008g03810.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA06G08640.1 (Glycine max), 5'ss of exon 3
CAAGGTGAACAATGTTGACGTCGTATACACTCCATGGCACAATCTGAAGAAAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttctttattttcttctgctctgtgc---tttgcaacttttatttc---tttttggtga---gcatgcatat--------gaaagatagat-actgatgtagtttttgtgcttaatttag--------------------------
 || |||||||||||||| || || |||||||| |||   ||| | |||||||||||||| ||||||||||| |||||||||||| |||| |||||||||||||  ||  |||   |    |  | || |     || ||  |||| ||||   || || ||     || |   | |        |   | ||||| | || |  || ||  ||  | |   ||                           
TAAAGTGAACAATGTTGATGTTGTTTACACTCCCTGGTCTAATTTAAAGAAAACTGCTTCAATGGATGTTGGGCAAGTTGGTTTTCACAACTCAAAAATGgtgaattttcttacacttagatattttgcgtattctttcactttttttttccagttcttcgtcttttgccttttttttcacagtgggtgggtagatgaatggttgagcttccgttttcagagtatcattttctggttttcgtgtattttag

upper sequence: Vv04s0008g03810.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA04G08530.3 (Glycine max), 5'ss of exon 4
CAAGGTGAACAATGTTGACGTCGTATACACTCCATGGCACAATCTGAAGAAAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttcttt--attttcttctgctctgtgct-ttgcaacttttatttc-------tttttggtgagcatgcatat------------gaaagatagat-actgatgtagtttttgtgcttaatttag--------------------------
 || ||||||||||| || || || ||||| || |||   ||| | |||||||||||||| |||||||||||||||||||||||| |||| |||||||||||||  |  |||  ||||   |||  ||  |  | || ||  |||| ||||       |||||  |  || |   | |            |  || ||||| | || |  || || |||  | |   ||                           
TAAAGTGAACAATGTCGATGTTGTTTACACACCCTGGTCTAATTTAAAGAAAACTGCTTCAATGGATGTTGGCCAAGTTGGTTTTCACAACTCAAAAATGgtgatttcttttacatttggatcttttccatattctttcagtttttttttccagttcttttttattttgcctttttgttttttcacagtgggtaggtagatgaatggttgagcttctgttttcagagtatcattttctggttttcatgtattttag

upper sequence: Vv04s0008g03810.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G11500.2 (Arabidopsis thaliana), 5'ss of exon 3
CAAGGTGAACAATGTTGACGTCGTATACACTCCATGGCACAATCTGAAGAAAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttctttattttcttctgctctgtgctt-tgcaacttttatttctttttggtgagcatgcatatgaaagatagatactgatg--tagtttttgt--gcttaatttag
|||||||||||| ||||| || || |||||||| |||  |||  ||||||||||||| || ||||||||||| |||||||||||  |||||||||| ||||| |||||||| || |          | || ||  |||    | |  |  |    ||  |  || | |     ||| |||| ||||   ||  |  | |  | ||  || ||
CAAGGTGAACAACGTTGATGTTGTGTACACTCCGTGGTCCAACTTGAAGAAAACTGCCTCCATGGATGTTGGTCAAGTTGGTTTCCACAATTCAAAGATGgtaagcttcttcatctctaaagaaattttggttgcgcatacataaactgctcaaagtatggttgtaaagcttcgat-gatattgatacctaactcatatttgtttcgttcag

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|161720775|gb|FC070283.1|FC070283
EST:     AAAGTGCTTCTATGGATGTTGGACAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|34549359|gb|CF517591.1|CF517591
EST:     AAAGTGCTTCTATGGATGTTGGACAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|110715789|gb|EE094238.1|EE094238
EST:     AAAGTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|110710049|gb|EE086042.1|EE086042
EST:     AAAGTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|30128520|gb|CB913859.1|CB913859
EST:     AAAGTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|161721392|gb|FC070768.1|FC070768
EST:     AAAGTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|110357353|gb|EC920834.1|EC920834
EST:     AAAGTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
EST: gi|27583079|gb|CB005774.1|CB005774
EST:     AAAGTGCTTCTATGGATGTTGGACAAGTTGGTTTTTACAATTCAAAAATG                         GTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG
genomic: AAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttct ... cttaatttagGTACGCACTGTGAGAGTGGAGAAGCGAATAAATGAGATAGTTAATAGATTG