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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaagttctctgagtaaattttgaatttatttctaaacttcaaattgttttgccattatttagcatgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag

Basic information

species Vitis vinifera
transcript Vv03s0038g00970.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA07G30150.1 (Glycine max), 5'ss of exon 10
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgtttttt-----cttcctaagttctctgagtaaattttgaatttatttctaaacttcaaattgttttgccattatttagca---tgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
||||||||||||||||| ||||||||||||||||| ||||| || || || |||||||| || || |||| ||| ||| | ||||| ||||||||| |||| || |  ||||| ||         |  |  |  || ||| |||  |     |    |||  ||  || | || | | |    ||||||| ||    ||  |   | ||| | | | || |  || |||  |                                
GAGGTGGATCCATGTGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCCACTGGACCTAAATCAGCACTGTTTGTTCCAGAAgtaggtctaatcgccctcttattgcacacacacccctgatattttcttagttga----aaccacattcttatcctaccaaatatgtaa--attatttggccaactgaaaaaatacttatctattattttcatgttattag-------------------------------

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA08G07160.1 (Glycine max), 5'ss of exon 10
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaa-gttctctgagtaaattttgaatttatttctaaacttcaaattgttttgccattatttagcatgc--gattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
|||||||||||||| || ||||||||||||||||| ||||| || || || ||||||||||| || |||| ||| ||| | ||||| || |||||| |||||||    ||||| ||       ||| |  || ||| ||| ||      |||  | ||  | |  || |||||      |||||||  |   |   |   | ||| | | | || |  ||     ||  ||                            
GAGGTGGATCCATGCGAAGATTTGACTGATGATGATATTCGCACAGCCATACAGAATGCAACTGGACCTAAATCAGCACTGTTTGTTCCTGAAgtaggtcttatcaccctcttattacacacacctgatattttcttagtcaaacccacattcttatccta-ccacatattgtaa----attatttgaccaactgaaaaatacttatctattattttcat----gcacttag---------------------------

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA13G32940.1 (Glycine max), 5'ss of exon 10
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaagttctctgag--taaattttgaatttatttc---taaacttca-aattgttttgccattattta-gcatgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
||||||||||| ||||| ||  | |||||||||||||| || ||||| || |||||||| || || || | ||| ||||| ||||| ||||||||| ||||| |     |  | |||          |   |   ||   || |||| ||| ||  ||    | |  ||   || || ||||| ||  | |  | || | | ||| | |      ||| |||| | ||| | ||  ||| | |           | |  ||||
GAGGTGGATCCGTGTGAAGACCTAACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCATTGTTTGTTCCAGAAgtaggtctttttacctttctttttaaagaaaaagaagacatagaaattatatttagaagtttctttagttgatttttgtaaatgctttgctatattctgtgaatccaaatttgcataaaaaaaat-tctaccctaaaacatgttta-tccatttattttcgtgtaatcag

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA15G06380.1 (Glycine max), 5'ss of exon 10
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaagttctctgag--taaattttgaatttatttc---taaacttca-aattgttttgccattatttagcatgcgattttccttttttgtaatct---ctatcttaacatataattagtgctaaccccaaaatatcttcag
||||||||||| ||||| ||  |||||||||||||||| || ||||| || |||||||| || || || | ||| || || ||||| ||||||||| ||||| |     | || ||           |       ||   || |||| | | ||  ||    | |  ||   || ||||||||   ||| ||   || || |     ||    |||       || | ||  | ||  ||| | |          || |  ||||
GAGGTGGATCCGTGTGAAGACCTGACTGATGATGACATCCGTACTGCCATACAGAATGCTACTGGGCCCAAATCAGCGTTGTTTGTTCCAGAAgtaggtctttttacattttttttaaaagaaaaagaagagatagaaattatatttaggagtttctttagttgatttttgtaaatgttttgc---tatatactttgtgaatccaaattcacataaaaaaaaataccctagaacatgttta-tccatttattttcatgtaatcag

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT4G33650.1 (Arabidopsis thaliana), 5'ss of exon 10
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaagttctctgagtaaattttgaatttatttctaaacttcaaattgttttgccattatttagcatgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
||||| |||||||| ||||| ||||| |||||||| ||||| |||||||||||||||||||| || || ||||||||||||||||| ||||| ||| || |  ||      ||      | |    ||||| ||   ||    |  |   ||   || |   |||| ||  ||       | ||   | | | |   |   |  ||  | || || |  |  | |  |||||    ||                  
GAGGTTGATCCATGCGAGGACTTGACAGATGATGATATTCGGACTGCAATTCAGAATGCAACTGGTCCAAGATCTGCATTATTTGTTCCAGATgtaggtttcttaacatgttt-cagcatatatggaagttatcctggttg--tcagggctt---tcaagcattcatatgtttccttgccttttccacttcccaggatatctaattagagtccct-tgatctcgttcaattatgcatag-----------------

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT2G14120.1 (Arabidopsis thaliana), 5'ss of exon 10
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaagttctctgagtaaattttgaatttatttctaaacttcaaattgttttgccattatttagcatgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
||||| ||||||||||| || || || | |||||| ||||| |||||||| || |||||||| || || ||||||||||||||||| ||||| ||| || |              | | | | ||||||      |    | ||||    |||| | |    | || ||  ||        |||| || || | ||||   ||||    |   | |   | |    ||  |  ||||  |      || |    ||
GAGGTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGATgtaggttta-------------tctatatccctaagcatgtgggagcatttttttgcttatctgttctttccacatactt--------attttgcttgagttttttactttt----acagcaactctgattagtatctcttgctttcattctcatctgcatag

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 11
GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttcttcctaagttctctgagtaaattttgaatttatttctaaacttcaaattgttttgccattatttagcatgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
   || ||||||||||| || || || | |||||| ||||| |||||||| || |||||||| || || ||||||||||||||||| ||||| ||| || |              | | | | ||||||      |    | ||||    |||| | |    | || ||  ||        |||| || || | ||||   ||||    |   | |   | |    ||  |  ||||  |      || |    ||
---GTTGATCCATGTGAAGACTTAACAGCTGATGATATTCGGACTGCAATACAAAATGCAACTGGTCCCAGATCTGCATTATTTGTTCCAGATgtaggttta-------------tctatatccctaagcatgtgggagcatttttttgcttatctgttctttccacatactt--------attttgcttgagttttttactttt----acagcaactctgattagtatctcttgctttcattctcatctgcatag

upper sequence: Vv03s0038g00970.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S82_15V6.1 (Physcomitrella patens), 5'ss of exon 10
-------GAGGTGGATCCATGTGAGGATTTGACTGATGATGACATTCGAACTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtcttatagggctcttgttttttc--ttcctaagttctctgagtaa----attttgaatttatttctaaacttcaaattgttttgccattatttagcatgcgattttccttttttgtaatctctatcttaacatataattagtgctaaccccaaaatatcttcag
       ||||| ||||||||||| | ||| || ||||| || ||||||||||| ||||| |||||||| || || | |  ||   | |||||||| || |||    | | |  | | ||    || |  |  || |  ||   | ||||    | | ||||   |    || |  | | ||   ||     |  ||  |||                                                                   
GGTACAGGAGGTTGATCCATGTGATGTTTTAACCGATGAGGATATTCGAACTGCCATTCAAAATGCAACAGGACCCAAAAATGTGCTCTTTGTGCCTGAGgtacaattcaaaacggtattacccttgcagtggctgaaatcctggtgtaatgtcaatctgaac--agccgtagagctaagatcaatt--atttccttgggcaga-----------------------------------------------------------------

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|122689415|gb|EC938921.1|EC938921
EST:     CTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA                         GTGCCGTTTGAAGTTCTTGTGAGAAGGCAAATAGCTCGTTTGTTAGATCCA
genomic: CTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtctta ... atatcttcagGTGCCGTTTGAAGTTCTTGTGAGAAGGCAAATAGCTCGTTTGTTAGATCCA
EST: gi|352764636|gb|FQ469711.1|FQ469711
EST:     CTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAA                         GTGCCGTTTGAAGTTCTTGTGAGAAGGCAAATAGCTCGTTTGTTAGATCCA
genomic: CTGCAATTCAGAATGCAACCGGCCCTAGATCTGCATTATTTGTGCCAGAAgtatgtctta ... atatcttcagGTGCCGTTTGAAGTTCTTGTGAGAAGGCAAATAGCTCGTTTGTTAGATCCA