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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgtaatatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatggtgatatttactagatttcagattttcctc...

Basic information

species Vitis vinifera
transcript Vv15s0045g00540.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os08g36994.1 (Oryza sativa), 5'ss of exon 5
TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGg--taatatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatggtga--tatttactagatttcagattttcctc
||| | ||||   || ||||| || || |||||||   |  |||||||||||||||||||||| ||||| |||||| | ||||| ||||| ||||||||||  |  |  ||  ||  ||  |||||     || |||  |   || ||  | | |      |  ||   ||    |  |||| | |  | |     |||   | 
TCCACTTTATACCAAAGCTGTTAAATTCTATGAGGAGATCTCAAAGCAGCTTGTACATCAAGGCCATGTGCTTGATTTTTTTGCATGTGCACTTGACCAGgtttgctgcttttctcactgtttatc--atttaataagctatccaccc-atttcatcgcaaaggatcacatatcaacttattgaatgaagtattattttattt-

upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os09g28610.1 (Oryza sativa), 5'ss of exon 5
TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgta--atatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatggtgatatttactagatttcagattttcctc-----------------------------------------------------------------
||| | |||| |||| ||||| ||||| |||||     |||||||||| ||||| || || || ||||| || ||| |||||||||||||  |||||||||||   |  |||  | | ||        | | || |||  |    | | |   ||||      |    |||| |       || | ||  |||  | ||                                                                    
TCCACTTTATGATAAAGCTGTCAAGTTCTATGATCAGATTGCAAAGCAACTTGTGCACCAGGGGCATGTTCTGGATGTGTTTGCTTGTGCAGTTGACCAGgtatgttgcttatttatttttaacatgaggccataaatacctttttacagacaaaatgcaacctgctcgatgctttctcagacaacatcacagtatctctattatgtggattgaaatgaatggttatcttatttggactatttattgtttgtctttaattttcccag

upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G063775_T01 (Zea mays), 5'ss of exon 4
TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgta-atatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatggtg-atatttact-agatttcagattttcctc
 || |  ||| |||| ||||| |||||||||||   | |||||||||||||||| || ||||| ||||| || ||| |||||||||||||  ||||||||||       |   || | | || ||   |    ||| || || | | |   || | |   |  || |  || || || | | || |||   ||   |    ||
ACCACTCTATGATAAAGCTGTTAAGTTTTATGATCAAATTGCAAAGCAGCTTGTGCACCAAGGGCATGTGCTGGATTTGTTTGCTTGTGCAGTTGACCAGgtttgccactcatttcccttttttctaaatatgtaagttacaaaactt---tagagacaaaacatagtttgctgcatgtctccttagacgacattctcctttc

upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA16G09230.1 (Glycine max), 5'ss of exon 3
TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgtaatatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatgg-tgatatttactagatttcagattttcctc
 || ||||| |||||   |||||| || ||||| |||||| | ||||||||||| |||||||| |||||||| ||||| ||||||||||| ||||| |||||||| ||   |  | || | | | |  |  ||    |    |  | |         || ||||  | ||  | || |||    | ||||    |      
GCCACATTACCATAACTGTGTGAAATTCTATGATGGACTTTCGAAGCAGCTTGTTCATCAAGGCCATGTACTAGATCTTTTTGCTTGTGCTCTTGATCAGgtaatgttct-cacttttatcaactgaccctttctggttggtacacagcaatttgcctgtttataagttgactaatgtttgtctgttttccacctaaagaa

upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA03G22740.1 (Glycine max), 5'ss of exon 3
TCCTCATTATCATAAGGCTGTGAAGTTTTATGAGGGACTTGCAAAGCAGCTTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgtaatatttagctttcttgttatccggactattaatttccacatcctgtgtaaatattgattatgggatggtgatatttactagatttcagattttcctc------
 || ||||| |||||   |||||| || ||||| |||||| | ||||||||||| |||||||| |||||||| ||||| ||||||||||| ||||| |||||||| |||  |  | || | | | |  || ||    |    |  | |  |      || |||   | ||   || ||||     | || | ||| |  |      
GCCACATTACCATAAATGTGTGAAATTCTATGATGGACTTTCGAAGCAGCTTGTGCATCAAGGTCATGTACTAGATCTTTTTGCTTGTGCTCTTGATCAGgtaatgtttt-cacttttatcaactgaccttttctggttggtacacagcattttgtctgtttaaaagttgaccatgttta-----tctctgttttccacctaaaga

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|71884115|gb|DT033170.1|DT033170
EST:     TTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAG                         GTGGGGGTTGCTGAACTTAAAATTGC
genomic: TTGTACATCAAGGACATGTACTTGATCTGTTTGCTTGTGCCCTTGACCAGgtaatattta ... ttatttccagGTGGGGGTTGCTGAACTTAAAATTGC