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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgtaattatcctttagtttgtgatggatgaacatgctaagatattgtttaaaacataataatattcatatggttctgtag

Basic information

species Vitis vinifera
transcript Vv18s0001g11140.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: LOC_Os06g11190.1 (Oryza sativa), 5'ss of exon 13
GTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgtaattatcctttagtttgtgatggatgaacatgctaagatattgtttaaaa-----cataataatattcatatggttctgtag
| ||||| ||| ||| ||| ||| ||||||| || |  |||||  | |||||||||||||| || ||||||||||||| ||||||||||  | |  |               |  | ||  |    |   | ||  ||      ||  || | |   | || || |  ||
GCTATGGGAGAAAATTTCGGGAGAGGCTTTTAGGGCAGTGGGGCGTCGTTGATGTAAATGATTGCTGCAGTTGTGCTACATTTTTGgtatatcttatcagacacagacctttttcatattttcgtgtggaggttgtaagcatttatgctagtgtcattctgattattaag

upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G000231_T01 (Zea mays), 5'ss of exon 11
GTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgtaattatcctttagtttgtgatggatgaacatgctaagatattgtttaaaacataat-aatattcata-tggttctgtag----------------------------------------
| ||||| ||||||| ||||||| ||||||| |  |  |||||  |||||||||||||||| || ||||||||||||  ||| ||||||    | ||||||  ||  |   |   |     |    |  |||  |  |  || | |  ||| | | || ||    ||                                        
GCTATGGGAGAGAATTTCGAGAGAGGCTTTTAGCACAATGGGGTGTTGTTGATGTAAATGATTGCTGCAGTTGTGCTGCATTCTTGgtatggcttctttagactg--acaaacccaatccgtcgacttctgtagaggatctagtcagcatttacagtgattactaagaaagatgaatgaacatgtttataccatgctgattattaag

upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA18G11480.1 (Glycine max), 5'ss of exon 13
GTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgtaattatcctttagtttgtgatggatgaacatgctaagatattgtttaaaacataataatattcatatggt----tctgtag-----
|||||||||| |  ||  |||| ||||||||| |||  |||||||| |||||||| ||||||||||| |||||||||| || |||||||||| |  |||  ||| |  |     | | |  |  | |  ||  |     |||| ||  || ||||| |    ||| |       
GTTATGGCAGGGTGTACAGAGAACGGCTTTTGCGCCAGTGGGGAATAGTTGATGTTAATGACTGTTGTAGTTGTGCTACATATTTGgtaattgt--tttgttttattgtttccta-cttttttggttgatggatctgttataagaaagtttatatgatataatctattatctag

upper sequence: Vv18s0001g11140.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA08G42730.1 (Glycine max), 5'ss of exon 13
GTTATGGCAGAGAATATCGAGAGCGGCTTTTGGGCCGCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgta-attatc--ctttagtttgtgatggatgaacatg-ctaa--gatattgtttaaaac--ataataatattcatatggttctgtag
|||||||||| || |  ||||| ||||||||||| || |||||||| |||||||| ||||||||||| |||||||| | || ||||||| ||| |    |||| ||| |     ||     || || |  ||| | || ||| |    | |||  ||  |     || |||||
GTTATGGCAGGGAGTTCCGAGAACGGCTTTTGGGACGATGGGGAATAGTTGATGTCAATGACTGTTGTAGTTGTGCAACATATTTGgtatatttttatttttaatttttttctaatatttgtggctgatggatgtggtataagagtggttatatgatataatctcttatgtag

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|110386297|gb|EC950880.1|EC950880
EST:     GCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG                         GTAGAAAGTGGAAAAGTAGATGGTGATCGACTCTGCATAACTGGGGGCTCT
genomic: GCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgtaattatcc ... ggttctgtagGTAGAAAGTGGAAAAGTAGATGGTGATCGACTCTGCATAACTGGGGGCTCT
EST: gi|352777768|gb|FQ466821.1|FQ466821
EST:     GCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTG                         GTAGAAAGTGGAAAAGTAGATGGTGATCGACTCTGCATAACTGGGGGCTCT
genomic: GCTGGGGAATTGTTGATGTAAATGACTGTTGCAGTTGTGCTAGATTTTTGgtaattatcc ... ggttctgtagGTAGAAAGTGGAAAAGTAGATGGTGATCGACTCTGCATAACTGGGGGCTCT