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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtcataacatggcttgtttggtagtatttttttcattttttttgtctctgatcttgctctttttctcccaccgtag

Basic information

species Vitis vinifera
transcript Vv03s0017g00680.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os01g73790.1 (Oryza sativa), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtt--tcaacatctgtcataacatggcttgtttggtagtatttttttcattttttttgtctctgatcttgctctttttctcccaccgtag
|||||| ||||| || |||||||| || |||||||| || ||||||||  |||||||||||||||| ||||||||  ||||| ||||||| ||||| || ||  ||    ||    || ||  |  ||    |   |     | |  || |  |  ||||| ||        |          |      | ||
TGTGAGACCTTTCAATTGGATTGGACCAAGAATGGACTTTATTCCTGGTGTTGATGGTCCTAGTGAGGGTGTTCCTCGGGTTTTGGCATGTTTCAGTAACgtatgtcaaccagtccctttctgagaataatatacct--ccatttcgttatggtcgtttttctcataagatgtatgtcgccaatgaatttgcag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G167872_T02 (Zea mays), 5'ss of exon 3
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtcataacatggcttgtttg-gtagtatttttttcatttt---ttttgtctctgatcttgctctttttctcccaccgtag
 ||||| |||||||| ||||||||||| || |||||||||||||||||  | |||||||||||||| ||||| ||  |||| ||||| |||||||| || ||  ||     ||  |||  |   ||   || | || |||   ||   || |||||      |  |  |  |||       |   |      | ||
CGTGAGACCTTTTAATTGGATTGGGCCAAGGATGGATTTCATTCCTGGTGTCGATGGTCCTAGTGAGGGTGTACCCCGGGTGCTGGCTTGCTTCAGTAACgtatgt----gcacttgtttttttatttattttctgagtatggttggcttaattttgcaccatagcattcttctgagaagatgcatggttttgcag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G063949_T01 (Zea mays), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtca--taacatggcttgtttggtagtatttttttcatttttt-ttgtctctgatcttgctctttttc--tcccaccgtag
 ||||| ||||| || |||||||| || || ||||| |||||||||||  |||||||||||||||||||||| ||  ||||| |||| |||||||| || || ||| |     | | |     |  ||   |   ||  |  | | |    ||| ||   |  |||| ||   ||| |  |  |  |      | ||
CGTGAGACCTTTCAATTGGATTGGACCAAGGATGGACTTCATTCCTGGTGTTGATGGTCCTAGTGAAGGTGTGCCTCGGGTTTTGGCTTGCTTCAGTAACgtaagtgttcttgtttcttggtgaggatcattatcttaattatttatgcaccatgttcagtcttctcagaagatgcacggtaccaatggttttgcag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA12G08930.1 (Glycine max), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttca-acatctgtcataacatggcttgtttggtagtatttttttcattttt-----tttgtctctgatcttgctctttttctcccaccgtag
|||||||||||||||||||||||| ||| ||||||||||||||||||||||||||||||| ||||| ||||||||  ||||||| |||||||| |||||||| |||| |  || | ||  ||      | || || | |  | ||      | ||||     |||||     || || || |||| ||    | | ||
TGTGAGGCCTTTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCATGCTTTAGCAATgtcagttacttacttttgctatgttgaagttt-ttagatgattttagccagagttttgaaaatttgttcaaaatttt-ctgttttcctttgtctgcag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA17G05440.1 (Glycine max), 5'ss of exon 3
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtcataacatggctt--gtttggtagtattttt-----ttcattttttt------tgtctctgatcttgctcttt-ttctcccaccgtag
|||||| |||||||| |||||||| ||  |||||||||||||||| |||||||||||||| ||||| ||||||||  |||||||||||||||| |||||||| |||||  |  |   |    || | | ||  | |||    |||| ||     |  || |||||      ||  ||| |   |  ||||  ||      | ||||
TGTGAGACCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatattgttgttagtcaatatttttaaataatgattctaaatattttcttcatttcttttctgtag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA12G30490.2 (Glycine max), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttcaacatctgtcataacatggctt--gtttggtagtatttttttc-attttttttgtctctgatcttgctctttttctcccaccgtag-------
||||||||||||||| |||||||| ||  |||||||||||||||| ||||||||||| || ||||| ||||||||  |||||||||||||||| |||||||| |||||  |  |   |    || | | ||  | |||    ||| ||  || || ||||| |    ||||  |     ||||||||   | |         
TGTGAGGCCTTTTAATTGGATTGGACCACGAATGGATTTCATTCCCGGCATTGATGGCCCAAGTGAGGGTGTTCCTCGGGTTCTGGCATGCTTTAGCAATgtgagtttacattttgatttagactttgtttaagcttgtatatatgttactcgatatttttggataatgattctaaatattttctccattccttttctgtag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA11G19550.1 (Glycine max), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttca-acatctgtcataacatggctt----gtttggtagtatttttttcattttttt-----tgtctctgatcttgctctttttctcccaccgtag
||| ||||| |||||||||||||| ||| ||||||||||||||||||| ||||||||||| ||||| ||||||||  ||||||| || ||||| |||||||| |||| |  || | ||  ||  | |    |    ||||| |  ||||||   |    ||||     | | |   |  || || |||| ||    | | ||
TGTAAGGCCATTTAACTGGATTGGACCTCGAATGGATTTCATTCCTGGGATTGATGGTCCAAGTGAGGGTGTTCCTCGGGTTCTTGCTTGCTTTAGCAATgtcagttacttacttttgctattgctttttgttgaagtttgttgatattttagccggagttttgaaaatttgttcaaattttctgttttcctttgtctgcag

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT2G27860.1 (Arabidopsis thaliana), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagt-ttcaacatctgtcataacatggcttgtttggtagtattt-ttttcattttttttgtctctg-atcttgctctttttctcccaccgtag
 ||  | ||||||||||||||||| ||||| ||||||||||| || ||||||||||||||||| |||||||| ||| | || || || ||||| || || || ||| |||||   |    |||  |     || | |   || | | | | ||   |||| ||   || ||||   ||| | | ||         
CGTACGACCTTTTAACTGGATTGGACCTAGGATGGATTTCATCCCCGGCATTGATGGTCCTAGCGAAGGTGTCCCACGTGTCCTTGCCTGCTTTAGTAACgtaagtgttcaaatccaagtatataacccaatgctagtctgtgtatatatgcaagcttttagttaatgcatctctatctatctttcag-------

upper sequence: Vv03s0017g00680.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G08200.1 (Arabidopsis thaliana), 5'ss of exon 5
TGTGAGGCCTTTTAACTGGATTGGGCCTAGAATGGATTTCATTCCTGGCATTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagttt-caacatctgtc--ataacatggcttgtttggtagtatttttttcattttttttgtctctgatcttgctctttttctcccaccgtag
||| || || || ||||||||||| ||||| ||||||||||| |||||||||||||||||||| || ||||| ||| ||||||| || ||||| || || || ||| | ||   |  |||  || || ||  || ||     |  |     | |  |||||||| |    | ||| |   | | | |        
TGTAAGACCATTCAACTGGATTGGACCTAGGATGGATTTCATCCCTGGCATTGATGGTCCTAGCGAGGGTGTCCCACGGGTTCTAGCGTGCTTTAGTAACgtaagtatacaggcttagtccaatgacctgagttcttctcatggctgcagcttaacttttttgtttaactttttggtgggtattttcag------

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|110359156|gb|EC920189.1|EC920189
EST:     TGATGGTCC-AGGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAAT                         ACCCTTCTTCGTCGTGAGCCACT
genomic: TGATGGTCCTAG-TGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttca ... cccaccgtagAACCTTCTTCGTCGTGAGCCACT
EST: gi|110696696|gb|EE073040.1|EE073040
EST:     TTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAAT                         AACCTTCTTCGTCGTGAGCCACTCAAGCTTGTGGATGGTGGCCAATCCCAG
genomic: TTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttca ... cccaccgtagAACCTTCTTCGTCGTGAGCCACTCAAGCTTGTGGATGGTGGCCAATCCCAG
EST: gi|30320980|gb|CD004242.1|CD004242
EST:     TTGATGGTCCTAGTGAAGGTGTTCCCAGGGTTCTGGCATGCTTCCGCAAT                         AACCCTTCTTCGTC
genomic: TTGATGGTCCTAGTGAAGGTGTTCCAAGGGTTCTGGCATGCTTCAGCAATgttagtttca ... cccaccgtagAACC-TTCTTCGTC