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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCAATGCCTGCTTTGCCACACAGTGGTAGCTCTTCAAAGCCATTGATGATGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcag

Basic information

species Vitis vinifera
transcript Vv04s0008g04890.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA14G16040.1 (Glycine max), 5'ss of exon 11
CTCAATGCCTGCTTTGCCACACAGTGGTAGCTCTTCAAAGCCATTGATGATGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcag---------------------------
 |||||||||||||| || ||||||||||| |||||||||||||| |||||||| ||  |||||||  |||||||||| |||||||| ||||| || ||||| ||            ||  ||  |   |  ||||| ||  |  |||  || ||||| |  |||||||  |||||||||||||||                           
GTCAATGCCTGCTTTACCTCACAGTGGTAGTTCTTCAAAGCCATTAATGATGTTTAGTGCTGATGGCTCTGGAACTCTGACATCACCTTCAAACCAATTGgtaagtgg---------ctctttcaatagatggaaggaataataaattc-cttgcatgtagactcattgccattccattttggcagtgggatgataaggatcttgaattgcag

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA04G07460.1 (Glycine max), 5'ss of exon 11
CTCAATGCCTGCTTTGCCACACAGTGGTAGCTCTTCAAAGCCATTGATGATGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcag---------------------------
 ||||||||||| ||||| || |||||||| |||||||||||  | |||||||| ||||| |||||||||||||| ||||| ||||| || || |||||||||||     | | |   |  ||  | | |  ||||| ||  |  | || || ||||| |  |||||||  |||||||||||||||                           
ATCAATGCCTGCCTTGCCGCATAGTGGTAGTTCTTCAAAGCCTCTAATGATGTTTAGCACAGATGGTACTGGAACCCTTACGTCACCTTCTAACCAGTTGgtgagtggtttttctgtgtgttttaattgatggaaggaatcatgaagttccttgcatgtagactcattgccattccattttggcagtgggatgataaggatcttgaattgcag

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA17G30910.1 (Glycine max), 5'ss of exon 11
CTCAATGCCTGCTTTGCCACACAGTGGTAGCTCTTCAAAGCCATTGATGATGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcag---------------------------
 |||||||||| ||| || || ||||||||||||||||||||||| |||||||| ||  |||||||  |||||||||| |||||||| ||||| || ||||| ||              ||||  | |    | | ||| |  | | || || ||||| |  |||||||  |||||||||||||||                           
GTCAATGCCTGTTTTACCTCATAGTGGTAGCTCTTCAAAGCCATTAATGATGTTTAGTGCTGATGGCGCTGGAACTCTGACATCACCTTCAAACCAATTGgtaagtgg----------ctctttcaatcgatggaaggaataataagttccttgcatgtagactcattgccattccattttggcagtgggatgataaggatcttgaattgcag

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA06G07580.1 (Glycine max), 5'ss of exon 11
CTCAATGCCTGCTTTGCCACACAGTGGTAGCTCTTCAAAGCCATTGATGATGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcag---------------------------
 ||||||||||| ||||| || |||||||| ||||| ||||| || |||||||| ||||| ||||| |||||||| ||||| ||||| || || |||||||||||     | | |   |  ||| | | |  ||||| ||| |  | || || ||||| |  |||||||  |||||||||||||||                           
ATCAATGCCTGCCTTGCCTCATAGTGGTAGTTCTTCGAAGCCTTTAATGATGTTTAGCACAGATGGCACTGGAACCCTTACGTCACCATCTAACCAGTTGgtgagtggtttttctgtgtgtttgaattgatggaaggaattatgaagttccttgcatgta--ctcattgccattccattttggcagtgggatgataaggatcttgaattgcag

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|110711263|gb|EE087569.1|EE087569
EST:     TGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTG                         TGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAA
genomic: TGTTCAGCACTGATGGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaag ... attttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAA
EST: gi|56408846|gb|CX017098.1|CX017098
EST:     TGGAACTCTTACATCACCGTCAAATCAGTTG                         TGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAA
genomic: TGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaag ... attttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAA
EST: gi|56408912|gb|CX017164.1|CX017164
EST:     GGTACTGGAACTCTTACATCACCGTCAAATCAGTTG                         TGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAA
genomic: GGTACTGGAACTCTTACATCACCGTCAAATCAGTTGgtgagcaaag ... attttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAA