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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagtggacactactttgatctcttcatcgtgtttacattctctaactcactgcttttttatgttaatcaccttacag

Basic information

species Vitis vinifera
transcript Vv09s0054g00700.t01
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: LOC_Os02g33490.1 (Oryza sativa), 5'ss of exon 11
CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagtggacactactttgatctcttcatcgtgtttacattctctaactcactgcttttttatgttaatcaccttacag-------
 |||||||| || ||||| || || ||||| || ||||| || ||||||||||| ||||||||||| ||  | || || || ||    || || ||  |||||  |    | ||||| ||      ||   |  |||| |||| |  || |   | | | ||      |    | |  |       
AAAGGGATTTGCTATTGGGTCAGCAGCACTGGCTTCCTTTCTCCTGTTCAGTGCATATATGGATGAAGTAGCTGCTTTCGCACAATTGCCATTCAAAGAGgtattt---tattacttagacacg--caaaatacttactttctgtg-cttataacatatataatggtcttgtgtaatggattgcag

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA08G24120.1 (Glycine max), 5'ss of exon 10
CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagtggacactactttgatctcttcatcgtgtttacattc-tctaactcactgcttt-tttatgttaatcaccttacag----------------------
||| || || || ||||| || || || || ||||| |||||| |||| |||||||||||||||||||| ||  |||||||||||||||||||||| |||||  |  || ||||  |  |   | | ||   | ||| |||  | ||  || ||   |  |  ||| |  |    | |                         
CAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCATCTTTCCTTTTGTTTAGTGCTTATATGGATGAGGTTTCTTCATTTGCTCATGAACCTTTTAAACAGgtgcgcaga-actagct--acagcctaattaggcttaaatttgtttaggtccctatataatacatgctcgtttgttgatgttctgttttgttgaataggaggg

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: GLYMA07G00350.1 (Glycine max), 5'ss of exon 11
CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagtggacactactttgatct-------cttcatcgtgtttacattctc---taactca----ctgcttttttatgt--taatcaccttacag-----
||| || || || ||||| || || || || ||||| |||||| |||| |||||||||||||| ||||| || ||||||||||||||||||||||| |||||  |  ||     |||  | ||       ||| |   ||||||  | |     |||  ||    | | || || ||||  |  |    ||  |      
CAAAGGGTTTGCTATTGGTTCTGCTGCTCTTGCATCTTTCCTTTTGTTTAGTGCTTATATGGACGAGGTTTCTGCATTTGCTCATGAACCTTTTAAACAGgtgcgcagaactagcttcaacctaattaggcttaaatttgtttaggtccctatataatacatgctcggtttgttgatgttctgttttttttttaagagga

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: AT1G78920.2 (Arabidopsis thaliana), 5'ss of exon 11
CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagt----ggacactactttgatctcttcatcgtgtttacattctctaactcactgcttttttatgttaatcaccttacag
 || || || ||||||||||| || ||||| ||||| |||||||| || ||||| |||||||| ||||| ||||| |||||| |||   |||| ||  |||||  |      |  |  | ||| | | |||    |||| | |     |  |  |||  |  |       |||||        
GAAAGGGTTTGCCATTGGATCTGCTGCACTTGCATCATTCCTTCTCTTTAGTGCGTATATGGACGAGGTTTCAGCGTTTGCTAATGTGTCTTTCAAAGAGgtagatttcgttatgcatcgttgctgtattctcgatgttgagacaacttctcatactcatcctcggataaaatcag-------

upper sequence: Vv09s0054g00700.t01 (Vitis vinifera), 5'ss of exon 11
lower sequence: PP1S28_200V6.1 (Physcomitrella patens), 5'ss of exon 12
CAAGGGATTCGCCATTGGATCCGCGGCACTCGCATCCTTCCTTCTGTTCAGTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaag-----tggacactactttgatc--tcttcatcgtgtttacattctctaactcactgcttttttatgtt-aatcaccttacag---------------------------------------------------------------------------
|||||| || |||||||| || || ||  | || ||||| ||||| ||||||||||| ||||||||||||||  ||||  ||   |  ||||| |    ||||       |  |   | ||   ||   | ||||     | |||  |||   |  || |  ||||  | ||  |||   |  | |                                                                            
CAAGGGTTTTGCCATTGGCTCAGCTGCCTTAGCTTCCTTTCTTCTCTTCAGTGCTTACATGGATGAGGTGTCTTCATTCTCTGGCGTTCCTTTCACCACGgtataacatcttcatgttcctgcaattagtgttcagttattctactatcttggaaacaattgttttcaaggtccaattttcaaagaaggatgcagggtttgcatggaatattgtcttgtgaaaattaaaatcctctttaaaattcattttatgtgaactcag

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|77580819|gb|DV219323.1|DV219323
EST:     GTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAG                         GTTGATATTGCCATTCCAGAAGTTT
genomic: GTGCTTATATGGATGAGGTGTCAGCATTTGCTCATGAACCTTTTAAGCAGgtaagtggac ... caccttacagGTTGATATTGCCATTCCAGAAGTTT