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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag

Basic information

species Vitis vinifera
transcript Vv04s0008g05570.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G020976_T01 (Zea mays), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
| ||||||||||||||||||||||||||||| |||||||| |||||||   |||    |||  | |||   | || |||     |  ||| || |||  |   |  |||| |    |    | | ||   ||  ||||||  |       ||   |                             
GAAAATCTAGTGGCCTTAATAGCTTTGGCCTGATGTGGTGCAATGgta---tta----ttctgattgcccttttttcttctcgaacactgttt-tttattgctcttaatttcaacttcttatatcttaagatcttatacccctcttctggattacag----------------------------

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G133226_T04 (Zea mays), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
| |||||||||||||| |||||||||||||| |||||||| |||||||         |||   | |||   | || |||         |||  | | | |||   |     |||||     |    |  ||     ||  | ||   ||||||||||  | | |||   |||             
GAAAATCTAGTGGCCTCAATAGCTTTGGCCTGATGTGGTGCAATGgtatc-------attttgattgcccttttttcttc-------ttgaacactattttgattg---ctcttaact---tcagatcaaacttcttatgtctt---aaaatcttatatcctgtttggatttcag----------

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA04G07030.1 (Glycine max), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
| ||| ||||||||||||||||||||||||| |||||||||||||||||||| | | |||  | |   | |    |  | ||   |     || ||||||||| | ||  |   |     | || |||   |  |  | ||       || | | |||  |     ||||| | || | ||||||
GCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGTAATGgtaagctgatagattgtatcaaatggc---ctatcagttgtt----tttttttcttggtaaaagaaagcat----gcttgtttttctttttaatct-------aattgtgatttgaaagaatttttctattatgttatag

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA14G14360.1 (Glycine max), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
||||| ||||||| |||||||||||||||||||||||||| ||||||||||||| | |||  |        |   |  ||| || | || |   ||||  | | |  |  |  |        |||||||||    |||| |||  |     | |||||| |                        
GGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATGgtaagcttatatattgta-----caatggcctgttaaactttcttaccctttttattgtaacagaatat-------cttatttgaa----atacttttcta-----ttttattatag-----------------------

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA17G32030.1 (Glycine max), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
||||| ||||||| |||||||||||||||||||||||||| |||||||||||||  | ||  |     |  |   |  ||| || | |   || || |  |  |  |||| |||| | |   |  |||     ||||    ||  ||                                      
GGAAAACTAGTGGTCTTAATAGCTTTGGCCTAATGTGGTGCAATGgtaagcttatgatttgta-----taatggcctgttaaacttacccttt-ttattgtaacgaaatttcttatttgaaatactttt----ctattttattatag--------------------------------------

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA06G07120.1 (Glycine max), 5'ss of exon 4
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattccaactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
| ||| ||||||||||||||||||||||||| |||||||| ||||||||||| | | |||  | |   | |    ||| |   ||  ||  || ||||  |   ||||   | |  | |  ||  ||| ||| ||| |  |  |  ||||   || ||  ||  | || |               
GCAAAACTAGTGGCCTTAATAGCTTTGGCCTTATGTGGTGCAATGgtaagctgatagattgtatcaaatgg----cctat---caaactttttttttttgtaaaagaaa-gcatgcttgttttctttttaat-ctaaatgtggtatgaaataatttttttattgtgttatag-------------

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ34914 (Selaginella moellendorffii), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattcc---aactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
||||    |  || || || ||||||||||| |||||||||||| ||||||| |    || |   ||     ||| || ||||| ||       || | ||||  ||||                                                                               
GGAAGGTCACAGGACTAAACAGCTTTGGCCTCATGTGGTGTAATAgtaagctcatggttttccgtaaagctctgtgtttctttacac-------ttttattctgagcag-------------------------------------------------------------------------------

upper sequence: Vv04s0008g05570.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: EFJ10077 (Selaginella moellendorffii), 5'ss of exon 6
GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaaaaattcc------aactgcttgtattcctttagacatgctgattattttcttggcagaattacttaatggggtttatttgaatgctataccttttcagaaaatcttattacatcttttttttttctttttttatag
||||    |  || || || ||||||||||| |||||||||||| ||||||| |    ||        | ||   ||| || ||||| ||       || | ||||  ||||                                                                               
GGAAGGTCACAGGACTAAACAGCTTTGGCCTCATGTGGTGTAATAgtaagctcattggttttccgtaaagctctgtgtgtttctttacac-------ttttattctgagcag-------------------------------------------------------------------------------

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|45368123|gb|CK906482.1|CK906482
EST:     GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTGATG                         GGATACTATGTGGACCAATATTGTTGCTTTGGACCTTTATTCGGGGCGACT
genomic: GGAAATCTAGTGGCCTTAATAGCTTTGGCCTAATGTGGTGTAATGgtaagcttaa ... ttttttatagGGATACTATGTGGACCAATATTGTTGCTTTGGACCTTTATTCGGGGCGACT