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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGAGGACAGTTGAAGAGGCCAGACCATGCTGATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaaatacgaatttcaatgactatccaaagtggtgacacacccacttatacttctttcttttgtttttgtgcatttccag

Basic information

species Vitis vinifera
transcript Vv18s0001g11700.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os11g17600.1 (Oryza sativa), 5'ss of exon 12
CGAGGACAGTTGAAGAGGCCAGACCATGCTGATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaaatacgaatttcaatgactatccaaagtggtg-acacacc-cacttatacttctttcttttgt----ttttgtgc---atttccag-------------------------
 |||| ||  |  ||||||| |||||||||||| |  |||| ||||||||||| ||||| || ||||||||   | | ||||| | ||  ||   |   |    |||  | | | | |  |  ||| ||   |||  ||   ||    | |||    |||||  |   |||  ||                          
AGAGGGCAACTCCAGAGGCCTGACCATGCTGATATGAGGTACAAATGCAGGACATATGCCCGACTTCTACAGTTCATCAAGgttacatgcaagttgtcctgttgtgaaaaacgatactattttacaaacagtactgttatggctacaatatgtgaaattttgcaccatattctcatgctttatattataatttttttctag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G099056_T01 (Zea mays), 5'ss of exon 12
CGAGGACAGTTGAAGAGGCCAGACCATGCTGATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaaatacgaattt--caatgactatccaaagtggtgacacacccactt-----atacttctttcttttgtttttgtgcatttccag---------
|| ||||| |||||| |||| || ||||| || ||| |||||||||||||||| ||||| || ||||| || ||||||||||| ||| |  |    | |||  ||| |  | | |  ||   | ||| |   ||||     | || | |  | | | |  ||     || | |          
CGTGGACAATTGAAGCGGCCTGATCATGCAGACCTTAGGTATAAATGCAGGACATATGCCCGACTTCTGCAGCACTTAAAGgtaataattgacttaattttgccaaggggtctgcctagatattacatatttacttcattgacacatttgacatgtatcatttcttgttgctaattactgcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA04G03710.1 (Glycine max), 5'ss of exon 12
CGAGGACAGTTGAAGAGGCCAGACCATGCTGATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaaatacgaatttcaatgactatccaaagtggtgacacacccacttatacttctttcttttgtttttgtgcatttccag------------------------------------------------
|| ||||||||||| |||||||| ||||||||| |  |||| || |||||||| ||||| ||||||||  | || ||||||||   ||||   | || || ||||  ||      |||   |     | ||  ||||  | | | |    | | | |  || |  ||                                                
CGGGGACAGTTGAAAAGGCCAGATCATGCTGATTTGAGGTACAAGTGCAGGACATATGCACGCCTTCTGAAGCATTTAAAGgtttaattatggatgatttacaatttctgcttcgagttcagttttgcgcatatatatatatatat---atatatatatatattgagttaatttctttgtttcctcccttaattatctttcctctaaacttgcag

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT1G47550.2 (Arabidopsis thaliana), 5'ss of exon 12
CGAGGACAGTTGAAGAGGCCAGACCATGCTGATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaaatacgaatttcaatgactatccaaagtggtgacacacccacttatacttctttcttttgtttttgtgcatttccag
 |||| ||| |||||||||| |||||||||||| | ||||| |||||||| || |||||||| ||| | ||||| |||||||| | |   |  |   | |    ||||   | |||      |  ||     ||       | |||| | | ||  ||||       
AGAGGGCAGCTGAAGAGGCCTGACCATGCTGATTTGCGGTACAAATGCAGAACATATGCTCGTCTTTTGCAACATTTAAAGgtaaaaccgagaaatgacta-ggtgacatgctaaatgctcaatgcagtacattgattccttgtcttctttcttgttgcag------

upper sequence: Vv18s0001g11700.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT1G47560.1 (Arabidopsis thaliana), 5'ss of exon 12
CGAGGACAGTTGAAGAGGCCAGACCATGCTGATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaaatacgaatttcaatgactatccaaagtggtgacaca-cccacttat-acttctttcttttgtttttgtgcatttccag
 |||| ||| |||||||||| |||||||||||| | ||||| |||||||| || |||||||| ||| | ||||| |||||||| | |   |  |     |    ||||   | |||      |  ||   || | ||  ||| | || ||| || |||           
AGAGGGCAGCTGAAGAGGCCTGACCATGCTGATTTGCGGTACAAATGCAGAACATATGCTCGTCTTATGCAACATTTAAAGgtaaaaccgagaaatggcta-ggtgacatgctaaaagctccatgcagtacattgattgcttgtctcctttcttgttgcag--------

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|30130173|gb|CB915512.1|CB915512
EST:     ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAG                         AGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC
genomic: ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaa ... gcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC
EST: gi|30305614|gb|CB982408.1|CB982408
EST:     ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAG                         AGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC
genomic: ATCTTCGGTATAAATGCAGGACTTATGCTCGCCTTCTACAACACTTAAAGgtcatattaa ... gcatttccagAGTCTTGATAAGAATTGCTTGGGTCCATTGAGAAAAGCCTATTGTAGCTCC