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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttatattgttgatgaccctgatttaagttctcttttgttacaaatttctaaaatgctaatttcttttcagacttgcatgaactagtagtacatct...

Basic information

species Vitis vinifera
transcript Vv01s0011g02460.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os01g02040.1 (Oryza sativa), 5'ss of exon 6
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttatattgttgatgaccctgatttaagttctcttttgttacaaatttctaaaatgctaatttcttttcagacttgcatgaactagtagtacatct------
|||||| ||||||||||| ||||| ||  | ||||||||||| ||  | || ||||| || |||||  ||||  ||||||||||||| || ||||| |||||||| |||||      | ||    | | |  || | ||   | |   |     |  ||  | |  |   |      ||  || |  |  | |  | | |      
TGATGTATTCTCTTTTGGCGTTGTTCTCTTAGAGCTTATTACCGGTAGAAAGCCTGTTGACGCATCAAAACCATTGGGTGATGAGAGCCTTGTTGAGTGGgtaagctatatca---gtaactagaaatcatttttttttagataatggaagatgagtatattgaaattagtatg---ttcaataagatttttgcccctgtatgatc

upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G458548_T01 (Zea mays), 5'ss of exon 8
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttat-attgttga---tgaccctgatttaagttctcttttgttacaa-atttctaaaatgctaatttctt-ttcagacttgcatgaactagtagtacatct
 ||||| ||||||||||| || ||  |  | |||||||||||||| ||||||||||| ||||||||   |||  ||||||| ||||| || || || ||||| |||| | |  | |||   |     || || |||     |   ||    |  || |||     ||  ||  |   |  || ||    ||  |  || |      
AGATGTGTTCTCTTTTGGTGTAGTTTTGTTAGAGCTTATTACTGGCCGGAAACCTGTTGATGCATCAAGACCAATGGGTGACGAGAGCCTCGTCGAGTGGgtgagttgttagcgatgagcttatatttgcttcaagcctggtgaagtggtgatgttcctagggcacttcttgttggctgtgatttttgggagttgctatt------

upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA02G14310.1 (Glycine max), 5'ss of exon 6
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAA-TGGgtaagttatattgt--tgatgaccctgatttaagttctcttttgttacaaatttctaaaatgctaatttc-ttttcagacttgcatgaactagtagtacatct
 ||||| |  |||||||||||||| ||| |||| || |||||||||||||| || || ||||||||||||||  |||| ||||||||  |||||||| ||||||  |     ||   ||     | || ||| |   |||||||| ||    |  |||   |  |    |  | ||     |||      ||| || ||     
-GATGTATATTCTTTTGGAGTTGTGCTTTTGGAACTAATTACTGGACGGAAGCCAGTAGATGCATCTCAACCTTTGGGAGATGAGAGCTTAGTTGAAATGGgtacatatagatgccatgccagtcttgcttttatcactcttttgcta-gtgtagctatctttttttcctaatctttgtgtttgggaagcctaatattagtg--

upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G23180.1 (Glycine max), 5'ss of exon 6
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagt-tatattgt-tgatgaccctgatttaagttctctt-ttgttacaaatttct-----aaaatgctaatttcttttcagacttgcatgaactagtagtacatct
|||||| |  ||||||||||| || ||| ||||||| ||||| ||| |||| || || |||||||| |||||  |||| ||||||||  ||||||||||||||  | || |||   ||     | || ||  |  |||||| || || | ||| | |     | || |||||| | |  | |   ||  || || |  | |       
TGATGTATATTCTTTTGGAGTCGTGCTTTTGGAGCTAATTACCGGAAGGAAGCCAGTAGATGCATCCCAACCTTTGGGAGATGAGAGCTTAGTTGAATGGgtatatatagattccatgccagtcttgcttgcatctctcttgtttttgctaatctgtgtttgagaaggctaatat-tagtgactattaaatcaattgattg-------

upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA16G19520.1 (Glycine max), 5'ss of exon 7
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagt-tatattgttgatgaccctgatttaagttctcttttgttacaaatttctaaaatgctaatttcttttcagacttgcatgaactagta-gtacatct-
 ||||| | ||||||||||||  | ||| ||||||| ||||| ||| |||| || || |||  ||||||||| || || || |||||||||||||||||||||||  ||||| | ||   ||     | | |  |||||||   | |    | ||||  |  |       |   |     | | |  || ||  ||  | || 
AGATGTGTACTCTTTTGGAGTCATGCTTTTGGAGCTCATTACAGGAAGGAAGCCAGTAGATATATCTCAACCAGTTGGAGAAGAGAGTCTAGTTGAATGGgtaagcatatataggtgccaacttct-tgtgatctctctttacctgctg--tactaatcttttgccaatctggtacttaggaaggtgctggtgtgtcaaactg

upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G26150.1 (Arabidopsis thaliana), 5'ss of exon 6
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttatattgttgatgaccctgatttaagttctcttttgttacaa-atttctaaaatgcta-atttcttttcagacttgcatgaactagtagtacatct
 || || ||||| ||||| ||||| || |||||| | || |||||||| || |||||||||||||| |||||  |||| |||||||| || |||||||||||| | ||||      || | |   ||||||  | |      |   |   |||||  ||| | |  ||| | || |   || ||                  
AGACGTATTCTCCTTTGGGGTTGTTCTACTGGAGTTAATCACTGGACGTAAGCCTGTGGATGCATCCCAACCTCTGGGAGATGAGAGCCTTGTTGAATGGgtatggtata-----aataagc---atttaaacttttgagaatggaactgtttcttcaatccaatgtttgtgttgaatgtttcag-----------------

upper sequence: Vv01s0011g02460.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G68690.1 (Arabidopsis thaliana), 5'ss of exon 6
TGATGTCTTCTCTTTTGGAGTTGTCCTTCTGGAGCTTATTACTGGACGGAAACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttatattgttgatgac--cctgatttaagttctcttttgttacaaatttctaaaatgctaatttcttttcagacttgcatgaactagtagtacatct
 ||||| ||||| ||||| ||||| || |||||| | || |||||||| ||||| |||||| |||| |||||  |||| |||||||| || |||||||||||| | |   |  ||||  |   | | |  |     |   ||| ||  ||   |||  |    |   || |||   |  || ||                  
AGATGTATTCTCCTTTGGGGTTGTTCTGCTGGAGTTAATCACTGGACGTAAACCGGTGGATACATCGCAACCACTGGGAGATGAGAGCCTTGTTGAATGGgtacgctcactatttgaacatttcttaacatgtaaacctgtttcttgaaatcctcttgacctttgcattattt---gtttttcag-----------------

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|30305077|gb|CB981871.1|CB981871
EST:     AACCTGTGGATGCATCTCAACCCGCGGGTGATGAGAGTCTAGTTGAATGG                         GCTCGACCTTTGCTTAGTCATGCCCTTGAGAATGAGGAGTTTGAAGGTTTG
genomic: AACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttata ... tatctttcagGCTCGACCTTTGCTTAGTCATGCCCTTGAGAATGAGGAGTTCGAAGGTTTG
EST: gi|30305137|gb|CB981931.1|CB981931
EST:     AACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGG                         GCTCGACCTTTGCTTAGTCATGCCCTTGAGAATGAGGAGTTTGAAGGTTTG
genomic: AACCTGTGGATGCATCTCAACCCGTGGGTGATGAGAGTCTAGTTGAATGGgtaagttata ... tatctttcagGCTCGACCTTTGCTTAGTCATGCCCTTGAGAATGAGGAGTTCGAAGGTTTG