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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATA

Basic information

species Vitis vinifera
transcript Vv04s0008g04890.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 11
gtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATA---------------------------
         ||   |  ||  ||  |   |  ||||| ||  |  |||  || ||||| |  |||||||  |||||||||||||||||||||||||| ||||||||||||||||||||| |||| ||||||||||| ||||| || ||||| |||||||| |||||||||||||||||||||||||                           
---------gtaagtggctctttcaatagatggaaggaataataaattc-cttgcatgtagactcattgccattccattttggcagtgggatgataaggatcttgaattgcagGCTGATGTGGACCGTTTTGTGGAGGATGGATCTCTTGATGATAATGTGGAGTCTTTTTTATCCCATGATGATACAGACCCTAGAGATACTGTTGGTCGTT

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G30910.1 (Glycine max), 3'ss of exon 11
gtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATA---------------------------
         ||   |  ||  ||  |   |  ||||| ||  |   ||  || ||||| |  |||||||  |||||||||||||||||||||||||| ||||||||||||||||||||| |||| ||||||||||| ||||| || ||||| |||||||| |||||||||||||||| ||||||||                           
---------gtaagtggctctttcaatcgatggaaggaataataagttc-cttgcatgtagactcattgccattccattttggcagtgggatgataaggatcttgaattgcagGCTGATGTGGACCGTTTTGTGGAGGATGGATCTCTTGATGATAATGTGGAGTCTTTTTTATCCCCTGATGATACAGACCTTAGAGATACTGTTGGTCGTT

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G07580.1 (Glycine max), 3'ss of exon 11
gtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATA---------------------------
|||||     | | |   |  ||| | | |  ||||| ||| |  | || || ||||| |  |||||||  |||||||||||||||||||||||||| ||||||||||||||||||||| ||||||| |||||||| ||||| || || || || ||||||||||||||||| ||||||||||| |                           
gtgagtggtttttctgtgtgtttgaattgatggaaggaattatgaagttccttgcatgta--ctcattgccattccattttggcagtgggatgataaggatcttgaattgcagGCTGATGTGGATCGCTTTGTGGAGGATGGATCTCTAGATGAAAATGTTGAGTCTTTTTTGTCCCATGATGACACGGACCCTAGAGATACTGTTGGCCGTT

upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G07460.1 (Glycine max), 3'ss of exon 11
gtgagcaaagtcttttccttcttgtacttacagaagggattttttatttactcgcatgaattctcattggtattccattttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATA---------------------------
|||||     | | |   |  ||  | | |  ||||| ||  |  | || || ||||| |  |||||||  |||||||||||||||||||||||||| ||||||||||||||||||||| ||||||| |||||||| ||||| || || || || ||||| ||||||||||| ||||||||||| |                           
gtgagtggtttttctgtgtgttttaattgatggaaggaatcatgaagttccttgcatgtagactcattgccattccattttggcagtgggatgataaggatcttgaattgcagGCTGATGTGGATCGCTTTGTGGAGGATGGATCTCTAGATGAAAATGTCGAGTCTTTTTTGTCCCATGATGACACAGACCCTAGAGATACTGTTGGCCGTT

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


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaagggattttttatttactcgcatgaattctcattggtattccattttggcagTGGGATGATAAAGATCTTGAATTGCAGGCTGATATGGATCGTTTTGTGGAAGATGGTTCCCTTGACGATAATGTTGAGTCTTTTTTATCCCATGATGATA
                                         ttccatttt  CT-rich tract
       attttttatttact  TA-rich tract