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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGTTGCCAGAATTTCTTGGTGGTACCTGTACGTGTGCAGATCAGGGAGGTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatactggactaggattttttatttttattttttttaaataaatcccatgattaagatgttattgtttcccttatccttcatttcatgagcttcattttattgcttataatgagaaacaattgtgtgcatgtgcaatttgttgcag

Basic information

species Vitis vinifera
transcript Vv03s0038g04470.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA11G12260.1 (Glycine max), 5'ss of exon 8
TGAGTTGCCAGAATTTCTTGGTGGTACCTGTACGTGTGCAGATCAGGGAGGTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatactggactaggattttttatttttattttttttaaataaatcccatgattaagatgttattgtttcccttatccttcatttcatgagcttcattttattgcttataatgagaaacaattgtgtgcatgtgcaatttgttgcag
|||||||||||||||||| || ||||||||||| |||||||||||||| ||||||||| | |||||||| ||||| ||||| ||||| || ||||||||||||  | ||||       |  |||     | ||   ||  | | |  | | |  ||    || ||| |   | | | |   || ||| |||| |   ||||||   |                                           
TGAGTTGCCAGAATTTCTGGGAGGTACCTGTACCTGTGCAGATCAGGGTGGTTGCCTCAGATCTGATAAAGGACCCTGGAAAAACCCTGAAATATTGAAGgttatacactg-------acctttctgcataataggttcaacacatgttctactatatcaatcttactacatgc-taactgttaattacatgtgga-cattttgcag-------------------------------------------

upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA12G04460.1 (Glycine max), 5'ss of exon 8
TGAGTTGCCAGAATTTCTTGGTGGTACCTGTACGTGTGCAGATCAGGGAGGTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatactggactaggattttttatttttattttttttaaataaatcccatgattaagatgttattgtttcccttatccttcatttcatgagcttcattttattgcttataatgagaaacaattgtgtgcatgtgcaatttgttgcag
|||||||||||||||||| || ||||||||||| |||||||||||||| ||||||||| | |||||||| ||||| ||||| ||||| || || |||||||||   |||   |||  ||  |||    ||  |    || | ||   | | |  ||    || ||| |   | | | |   || ||| |||| |   ||||||   |                                           
TGAGTTGCCAGAATTTCTGGGAGGTACCTGTACCTGTGCAGATCAGGGTGGTTGCCTCAGATCTGATAAAGGACCCTGGAAAAACCCTGAAATTTTGAAGgttatttac---act--gacctttctgcttagtagccttaacatgtgttctactatatcaatcttactacatgc-taactgttaattgcatgtgga-cattttgcag-------------------------------------------

upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA04G01220.1 (Glycine max), 5'ss of exon 8
TGAGTTGCCAGAATTTCTTGGTGGTACCTGTACGTGTGCAGATCAGGGAGGTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatactggactaggattttttatttttattttttttaaataaatcccatgattaagatgttattgtttcccttatccttcatttcatgagcttcattttattgcttataatgagaaacaattgtgtgcatgtgcaatttgttgcag
|||||||||||||||||| || |||||||| || |||| ||||||||||||||||||  | |||||||| || || ||||| ||||| |||||||| ||||||  || |||  || || |  | | ||| || || |  ||  | | |       || || ||| || |     || |   || ||| |||| |  |  ||  |  |                                           
TGAGTTGCCAGAATTTCTGGGAGGTACCTGCACTTGTGAAGATCAGGGAGGTTGCCTTAGATCTGATAAAGGCCCCTGGAAAAACCCTGATATATTCAAGgttatatgctgttcttggttgatat-tttatagttatactatgtcagt-------ttgagttgtaatagg----ctgacagttgattgcatgtgaatt-ttccacag-------------------------------------------

upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA06G01260.1 (Glycine max), 5'ss of exon 8
TGAGTTGCCAGAATTTCTTGGTGGTACCTGTACGTGTGCAGATCAGGGAGGTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatactggactaggattttttatttttattttttttaaataaatcccatgattaagatgttattgt--ttcccttatccttcatttcatgagcttcattttattgcttataatgagaaacaattgtgtgcatgtgcaatttgttgcag
|||||||||||||||||| || |||||||| || |||| ||||||||||||||||||  | |||||||| || || ||||| ||||| |||||||| ||||||  || |||  || |||      |   | ||   ||  |  ||  | |  |   | || |    ||||  |   || |   || ||| |||| |  |  ||  |  |                                           
TGAGTTGCCAGAATTTCTGGGAGGTACCTGCACTTGTGAAGATCAGGGAGGTTGCCTTAGATCTGATAAAGGGCCCTGGAAAAACCCTGATATATTCAAGgttatatgctgttcttggaaaa---accctgatacattcaaggtacctgcactatgtcagtttgacttgtaataggctgacagttgattgcatgtgaatt-ttccacag-------------------------------------------

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|351047103|gb|FQ454713.1|FQ454713
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351015523|gb|FQ447352.1|FQ447352
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351026236|gb|FQ428248.1|FQ428248
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|349822502|gb|FQ412766.1|FQ412766
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351014493|gb|FQ437495.1|FQ437495
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|30128724|gb|CB914063.1|CB914063
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351056783|gb|FQ443410.1|FQ443410
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351026103|gb|FQ428115.1|FQ428115
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|30296909|gb|CB973703.1|CB973703
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351027625|gb|FQ446789.1|FQ446789
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|349826667|gb|FQ418758.1|FQ418758
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351055947|gb|FQ453408.1|FQ453408
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351044521|gb|FQ443052.1|FQ443052
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACTCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|349828849|gb|FQ419182.1|FQ419182
EST:     GCTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351039650|gb|FQ461517.1|FQ461517
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351056747|gb|FQ443374.1|FQ443374
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351040873|gb|FQ438417.1|FQ438417
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|87584671|gb|DY473747.1|DY473747
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|349819344|gb|FQ412238.1|FQ412238
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|349817039|gb|FQ399786.1|FQ399786
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|30296834|gb|CB973628.1|CB973628
EST:     GTTGCCTCCGGTTTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|32270608|gb|CD719767.1|CD719767
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351034834|gb|FQ458191.1|FQ458191
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351024179|gb|FQ423602.1|FQ423602
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|30299808|gb|CB976602.1|CB976602
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351021812|gb|FQ437197.1|FQ437197
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351054162|gb|FQ450244.1|FQ450244
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
EST: gi|351038002|gb|FQ460744.1|FQ460744
EST:     GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAG                         ATGATGCATAATGGTGATGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA
genomic: GTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatact ... tttgttgcagATGATGCATAATGGTGACGCACGACGTGCTAGACAGGTTGTAAAAGTTTTA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGAGTTGCCAGAATTTCTTGGTGGTACCTGTACGTGTGCAGATCAGGGAGGTTGCCTCCGGTCTGATAAGGGACCATGGAATAACCCAGATATATTGAAGgttccatactggactaggattttttatttttattttttttaaataaatcccatgattaagatgttattgtttcccttatccttcatttcatgagcttcattttattgcttataatgagaaacaattgtgtgcatgtgcaatttgttgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG