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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTCAGACTCTGCCCTTTTTAAAGAGGCATTAGTGAGCTTGGCTACAGACTCAGGACTTCACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagtttttaaagctataatttcagcataatatgaattgggaggaaatgtggcttattgttgctaattccaattgctgcttctcaacaatgctag

Basic information

species Vitis vinifera
transcript Vv12s0059g00300.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g00300.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os01g32750.1 (Oryza sativa), 5'ss of exon 6
GTCAGACTCTGCCCTTTTTAAAGAGGCATTAGTGAGCTTGGCTACAGACTCAGGACTTCACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagtttttaaagctataatttcagcataatatgaattgggag-gaaatgtggcttat-tgttgctaattccaattgctgcttctcaacaatgctag
 || ||  |  |  |||||| ||| ||||||||||||||  | | ||||||||| ||||| || || |||||||| ||| | ||||||||| |||||||||| ||| |        ||   ||   ||  |  ||  ||| |  |   |      ||| |  |  ||||| ||                        
ATCTGAAACCTCAGTTTTTAGAGAAGCATTAGTGAGCTTATCAAGAGACTCAGGCCTTCATCCGTTGGTTCCTTACTTTTCCTACTTCATCGCCGATGAGgttgttatcttgctcttagagtctatattgtgcgagctggcattgccttacaatgtatatccttataatttcag-----------------------

upper sequence: Vv12s0059g00300.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G013908_T01 (Zea mays), 5'ss of exon 6
GTCAGACTCTGCCCTTTTTAAAGAGGCATTAGTGAGCTTGGCTACAGACTCAGGACTTCACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagtttt-taaagctataatttcagcataatatgaattgggaggaaatgtggcttattgt-tgctaattccaattgctgcttctcaacaatgctag
 || ||  |  ||||||||||||| || |||||||||||||| | ||| || || ||||| || ||||||||||| ||| | ||||||||  | || ||||| ||    ||    | |   ||  |     | |   ||   | || ||    |||| ||| |    |||  |||| | |                 
ATCTGATACGTCCCTTTTTAAAGAAGCTTTAGTGAGCTTGGCAAAAGATTCTGGTCTTCATCCTTTAGTTCCTTACTTTTCCTACTTCATTGCAGACGAGgttgtacagtagctttcttgcttttggtgggtttctttttatatgacatt--acttagtgtgtatccatttgaatttcag-----------------

upper sequence: Vv12s0059g00300.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA18G52720.1 (Glycine max), 5'ss of exon 2
GTCAGACTCTGCCCTTTTTAAAGAGGCATTAGTGAGCTTGGCTACAGACTCAGGACTTCACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagtttttaaagctataatttcagcataata-tgaattggga--ggaaatgtggcttattgttgctaattccaattgc-tgcttctcaacaat-gctag
||| || || |  || ||||||||||||||||| || |||||||| || ||||||||||| ||| ||||||||||||| |||| ||| ||  | ||||||||| |  |   |  | |   || |  |||||  |  ||    |  | ||||    |||||||| ||| ||| ||| |||  ||||||| |   | |  ||
GTCTGAATCAGTTCTCTTTAAAGAGGCATTAGTAAGTTTGGCTACTGATTCAGGACTTCATCCACTAGTTCCTTATTTCACATGCTTTATAGCTGATGAGgtaataat---atttgtctatttatgataatggttgataaaaatggaaaattctccttattgtagctcattacaaatgcacgcttctccattcttgtcag

upper sequence: Vv12s0059g00300.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA02G10220.1 (Glycine max), 5'ss of exon 6
GTCAGACTCTGCCCTTTTTAAAGAGGCATTAGTGAGCTTGGCTACAGACTCAGGACTTCACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagtttttaaagctataatttcagcataata-tgaattgggaggaaa--tgtggcttattgttgctaattccaattgc-tgcttctcaacaat-gctag
||| || || |  || |||||||| |||||||| || |||||||| || ||||||||||| ||| ||||||||||||| |||| ||| ||  | ||||||||| |  |   |  |||  ||| |  ||  |  |  ||    | ||||  |    |||||||| ||| ||| ||||||  |||||||| |   | |  ||
GTCTGATTCAGTTCTCTTTAAAGAAGCATTAGTAAGTTTGGCTACTGATTCAGGACTTCATCCACTAGTTCCTTATTTCACATGCTTTATAGCTGATGAGgtaatact---atttatctttttacgatgttggttgataaaaatgaaaatttcaccttattgtagctcattacaattgtgtgcttctccattcttgtcag

upper sequence: Vv12s0059g00300.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G04950.1 (Arabidopsis thaliana), 5'ss of exon 7
GTCAGACTCTGCCCTTTTTAAAGAGGCATTAGTGAGCTTGGCTACAGACTCAGGACTTCACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagtttttaaagctataatttcagcataatatgaattgggaggaaatgtggcttattgttgctaattccaattgctgcttctcaacaatgctag
|||| |  || | || | |||||| |||||||||||||||||  |||||||||||||||| ||  ||||||| ||||||||| | |||||  | |||||||||   ||  | ||   |         || | ||||     | ||     |     || ||||   ||  | || || |   |   ||       
GTCAAATCCTCCTCTGTATAAAGAAGCATTAGTGAGCTTGGCCTCAGACTCAGGACTTCATCCTCTAGTTCCATATTTTACAAATTTCATTGCTGATGAGgtaacatt--atgcaccaccgaggaactagtgtgaaccaataagacccacgttaagtttttgcagttttaattttctccacttgtgcag------

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|351014973|gb|FQ444262.1|FQ444262
EST:     CACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAG                         GTATCTCGTGGTCTGAATGATTTCAACCTCCTGTTTGCTTTGATGCGTGTG
genomic: CACCCATTAGTTCCTTATTTTACATACTTCATCTCCGATGAGgtagttttta ... acaatgctagGTATCTCGTGGTCTGAATGATTTCAACCTCCTGTTTGCTTTGATGCGTGTG