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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctattctaaaagcattataatgaacatttcaagtttgcttattacctattggttaactggctaatcaagtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag

Basic information

species Vitis vinifera
transcript Vv01s0011g04370.t01
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 5'ss of exon 11
AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctat-----tctaaaagcattataatgaacatttcaagtttgcttattacctattggttaactggctaatcaagtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag
 ||||| || |||||||||||  | || |||||||||||||| |||||||||||| | || || ||  | |||||||||||||||||||||  |||   | |     |||  | || ||  ||  |||||||  |   |    |||| |  ||  | |||  | |        |                                                                   
GAAACCTGTTAAAAAGGTGGGGTCTTTCTGTTGGCTTTCCCTAGCTATTTGCATTTTGGAGCTTCTACTATGCATCAAGTTTGGACATGgtgagtttgatgtaaatttcttgatgc-ttgcaagcaacatttgcatccttaaaattaaccgttc-tgaacacgttggcttgtgaacag---------------------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G095757_T01 (Zea mays), 5'ss of exon 12
AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctattctaaaagcattata-atgaacatttcaagt-ttgcttattacctattg--gttaactggctaatcaagtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag
 |||||| | |||||||||||| | || || ||||||||||| ||||| |||||| | || || || || |||||||||||||| ||||||  ||    |  || ||   |  |    ||| |  || |||||  || |||   |   |||  |    ||| |||  || |   |  |||  ||                                                        
CAAACCATTTAAAAAGGTGGGATCCTTCTGCTGGCTTTCCCTGGCTATATGCATTGTAGAGCTCCTGATCTGCATCAAGTTTGGGCATGgtgagtgt--tgctccaacttctctgcgtatgcaacttgcaagtgctgtttacacctccttgaagcacgctgacta--cacgggatcctgtgcag--------------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GRMZM2G110834_T02 (Zea mays), 5'ss of exon 11
AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctattctaaaagcattataatgaacatttcaagtttgcttattacctattggttaactggctaatca-agtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag
 |||||| | |||||||||||| | || || ||||||||||| ||||| |||||| | || || || || ||||||||||||||||| |||  ||    |  ||  ||  | |     ||   || |  || ||||  | |||    ||   | |  ||| |    ||    | ||||  ||  |                                                    
CAAACCATTTAAAAAGGTGGGATCCTTCTGCTGGCTTTCCCTGGCTATATGCATTGTGGAGCTCCTAATCTGCATCAAGTTTGGACACGgtgagtgt--tgctcccaactcctc----tgcgtatatgtagcttgca-agtacagtctga--agcgcgctgactgcagggggggtgtcctgtgcag---------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA20G25830.1 (Glycine max), 5'ss of exon 13
AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctattctaaaagcattataatgaacatttcaagtt--tgcttattacctattggttaactggctaatcaagtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag
||| |||||||||||||| ||||| | ||||||||| || ||||| ||||||||| | ||||| || |||||||| ||||||||||| |||   |  | || |    ||  ||| |     |  ||| |||||  |    ||||   ||||  ||| |  || || |   ||| |||     |   | |  | |                                            
AAAGCCAGTGAAAAAGGTCGGAGCATATTGTTGGCTCTCTCTTGCCATTTGCATTGTGGAACTTCTGATTTGCATTAAGTTTGGACACGgtagttctcttaatt---aattattgtgtcatat-tttgaagttagtatgcattaatcattgtataattcactgatta--cattcatggtggttgtgtttccacag-------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: GLYMA10G41430.1 (Glycine max), 5'ss of exon 12
AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctattctaaaagcattataatgaacatttcaagtttgcttattacctattggttaactggctaatcaagtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag
||| |||||||||||||| || || | ||||||||| || ||||| ||||||||| | ||||| || |||||||| ||||||||||| |||  ||  | || |    ||    | |     | ||||  || ||  | || |   ||||  ||| |  || ||  |   ||| ||| |                                                          
AAAGCCAGTGAAAAAGGTTGGGGCATATTGTTGGCTCTCTCTTGCCATTTGCATTGTGGAACTTCTGATTTGCATTAAGTTTGGACACGgtaggtctcttaatt---aattcctgtgtgtcatattttgaggttagt-ataaatcattgtataattcactgattgatggttg-tgtttccacag----------------------------------------------------

upper sequence: Vv01s0011g04370.t01 (Vitis vinifera), 5'ss of exon 12
lower sequence: AT1G15110.2 (Arabidopsis thaliana), 5'ss of exon 12
AAAACCAGTGAAAAAGGTGGGAGCGTTTTGTTGGCTTTCCCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccctattctaaaagcattataatgaacatttcaagtttgcttattacctattggttaactggctaatcaagtattgatgtctagttgatgtgtaaaacttgcctgctgacatttgtgaactgttattttactcttaccag
|||||| ||||||||||||||||| || |||||||| || || |  || |||||  | ||||| ||||| |||||||||||||||  ||||  ||      ||  | | ||  |    |    ||||   |||      |||| || ||   |    |  ||    ||  | |||  ||  ||||  | | |                                            
AAAACCTGTGAAAAAGGTGGGAGCATTCTGTTGGCTGTCACTGGGGATATGCATAGTAGAACTTCTCATCTGCATCAAGTTTGGAAGTGGTAGgtggttccttacacatgctctgccttagttatttatggtta--cagttacatagtgtggagagtgtaaacttggttgt-atggtta--tgatacgaacag-------------------------------------------

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|110360098|gb|EC922718.1|EC922718
EST:     CCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATG                         GCCTATTTCCCAAACCAATGCCTCTATGGTTGGTAATTTTCTGGATGTCTG
genomic: CCTTGCTATTTGCATTATTGAACTACTCATTTGCATCAAGTTTGGACATGgtttgttccc ... ctcttaccagGCCTATTTCCCAAACCAATGCCTCTATGGTTGGTAATTTTCTGGATGTCTG