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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag

Basic information

species Vitis vinifera
transcript Vv08s0040g02710.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os01g62020.1 (Oryza sativa), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgat---ctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag
|| || || || || ||||||||||||||||| ||||| |||||| | |||||||| ||||||||||||||||||||||| |||||| | |   | | |  |    |||  |||   ||  |  | |||   ||  | |    |  || ||| |    ||||   |  |  || | | |||                  
GTGCGCATTGCTCGCATTTTCAATACATATGGCCCTCGAATGTGTCTAGATGATGGCCGTGTGGTTAGCAATTTTGTTGCCCAGgttcgtttaacacgtaccgctattttattaacttttggttacacatt-tgcgctgtcaatatgaaattct---gagtttatacatgattatcattgtag----------------

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os03g17230.1 (Oryza sativa), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgt--tttgcag
||  | || || || || ||||| |||||||| |||||||||||| | ||||||||||| || |||||||| || || || ||||||||   |  | | ||||  | ||   | | ||    || | |   |         ||   || |||  |||||    ||  ||  | ||| ||| || |   |  ||| |||
GTGAGAATTGCGCGAATATTCAACACATATGGCCCTCGTATGTGTTTAGATGATGGGCGAGTTGTTAGCAACTTCGTCGCTCAGgtttg---tgttaatttatgattct---aatcctttggaaaagagaaa---------taagtatatttg-aagttt---agcattacttactattaaagatgcctcatttccag

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G370048_T01 (Zea mays), 5'ss of exon 5
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag
|| ||||| || || ||||||||||||||||| |||||||||||| | |||||||| |||||||| ||||||||||||||||||||| | |  |   || |||| |     |  || | |  |      ||| || |   |||  ||| |    | |   ||   || |  |    |                   
GTGCGTATTGCCCGCATTTTCAATACATATGGTCCTCGTATGTGTCTCGATGATGGCCGTGTGGTCAGCAATTTTGTTGCACAGgttcgtttgct--acatattatggactctatttttcttagtt--gtgatccta---ttatgcatgtaagca-gccatatgattgtccttgaag-------------------

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G359234_T03 (Zea mays), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag
|| ||||| || || ||||||||||||||||| |||||||||||  | || ||||| |||||||| ||||||||||||||||||||||| |  |   || |||| |      | || |   |      ||          ||| ||||   ||| |        ||  ||  |                       
GTGCGTATTGCCCGTATTTTCAATACATATGGTCCTCGTATGTGCCTCGACGATGGTCGTGTGGTCAGCAATTTTGTTGCACAGgtttgtttgct--acatattatagac-tatttttcttagttgtgatatttatgcatttaaacatccatatgatc------gtccttgcag----------------------

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G347717_T01 (Zea mays), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag
||  | || ||||| || || || |||||||| ||||| |||||| | |||||||| || || |||||||| |||||||||||||||||   ||     || |  | || |    |  |  ||    | |       | |||   || |  |  |||||      ||  || |  | |                  
GTGAGAATTGCACGCATATTTAACACATATGGCCCTCGAATGTGTTTAGATGATGGCCGAGTTGTTAGCAACTTTGTTGCACAGgtttg---tctcagtttgtgattctgatgcattggagaagaggattatcatagaacttcagcactgcttaaagtt--ggcattgcttcatttctag----------------

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA13G19640.1 (Glycine max), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag
|| ||||| || || ||||||||||||||||| || || |||||| | |||||||||||||| |||||||||||||||||||||||||||| | ||       | ||||||   || |    |  |   || |  | | |||     || |||||    ||| |  ||| || |   ||  ||             
GTTCGTATTGCTCGAATTTTCAATACATATGGACCCCGCATGTGTTTGGATGATGGGCGTGTCGTTAGCAATTTTGTTGCACAGgtttgattttct-------tgtccttattttttttgtcattattgtggagaggaacttg--tgttcttata----ctatatatttatttatgtttgcag-------------

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA10G05260.1 (Glycine max), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctga--cttattttcctta-cagttctgccaaacacaatgaac---cgaatcttagacatttttataagttctaaagtttttttaactgttatagctatgttttgcag
|| ||||| || || |||||||| |||||||| || || |||||| | |||||||||||||| |||||||||||||||||||||||||||  | ||    |||||||   ||  || |  ||   |   ||||       |  ||  ||   ||||  ||| |||   |                                 
GTTCGTATTGCTCGAATTTTCAACACATATGGACCCCGCATGTGTTTGGATGATGGGCGTGTTGTTAGCAATTTTGTTGCACAGgtttgactttcttgtccttatttaatttgtcattattgtggagagcaatttgtgttcttatactatttatttacatatgtttccag--------------------------------

upper sequence: Vv08s0040g02710.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT3G53520.4 (Arabidopsis thaliana), 5'ss of exon 4
GTACGTATAGCACGGATTTTCAATACATATGGGCCTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctcctgacttattttccttacagttctgccaaacacaatgaaccgaatcttagacatttttataa-gttctaa-agtttttttaactgttatagctatgttttgcag
||  | || || || |||||||| |||||||||||  | |||||  |||||||||||||||| ||||| || |||||||| |||||||     | | |   |  |                ||| ||||         | | |  | |||| | ||   ||| | ||   | ||     ||||| |||||        
GTTAGAATTGCTCGTATTTTCAACACATATGGGCCCAGAATGTGCCTTGATGATGGGCGTGTTGTTAGTAACTTTGTTGCCCAGgtttagctccttcatcaacat----------------aaagacaaccgctttcgtataaagccttttgaaaacactctgacagaactattgtggcttatatctatgcag-----

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|110691835|gb|EE070393.1|EE070393
EST:     CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG                         GCCATCCGCAAGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
genomic: CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctc ... tgttttgcagGCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
EST: gi|110387086|gb|EC951729.1|EC951729
EST:     CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG                         GCCATCCGCAAGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
genomic: CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctc ... tgttttgcagGCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
EST: gi|22010887|gb|BQ795921.1|BQ795921
EST:     CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG                         GCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
genomic: CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctc ... tgttttgcagGCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
EST: gi|30128347|gb|CB913686.1|CB913686
EST:     CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG                         GCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
genomic: CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctc ... tgttttgcagGCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
EST: gi|349830079|gb|FQ420339.1|FQ420339
EST:     CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAG                         GCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA
genomic: CTCGTATGTGTATTGATGATGGGCGTGTGGTTAGCAATTTTGTTGCACAGgtttgatctc ... tgttttgcagGCCATCCGCAGGCAACCTTTGACTGTGTATGGTGATGGAAAACAAACACGA