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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag

Basic information

species Vitis vinifera
transcript Vv04s0023g02970.t01
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 13
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctt-tggaaacttctttatc--tattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
|||||| || ||||| || ||||| || || |||||||| || |  || ||||||||||| || |||||||| ||||| ||||| ||| |||| |||||||||| || |   | |  |   ||     | ||||| | | || |||||   || ||  || ||| |      |||    |||||||  | |  |   ||                                                                                    
CCTTGGTGATTGTGGTCGAGCAGCAATCCAGACGCAAGGCTCCATGAATAATCCATTTGGGTCAACTTTTGTCTATGGATATCAGAATATTGCTTTTGAGgtggtttttaattaatcaaataagaatagagttttccctgtgcaaactgtattgtcattactcagaagtgaaaccgtt-tgttctgccttcactgattaacag--------------------------------------------------------------------------------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GRMZM2G116434_T01 (Zea mays), 5'ss of exon 13
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
||| || ||||||||||| || || || || || ||||| || |  ||||||||||||||||| |||||||| ||||||||||| ||| | || || |||||||||  ||  |  || | || ||||  | | |  |        |  || | | |||   | |  || | |    | || | || | |  ||                                                                                       
CCTCGGTGACTGTGGCCGAGCTGCAATCCAGACACAAGGCTCCATGAACAATCCATTTGGATCAACTTTTGTATATGGTTATCAGAATATCGCTTTCGAGgtgggt-gttattagat-cacactccaaatctgtgtc--------cccctgtgtatatcagatgtgac-atcgtgttatttttatgggtcaatag-------------------------------------------------------------------------------------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA01G37380.1 (Glycine max), 5'ss of exon 13
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtggg---ttattgatgaatactcaatccatgtgttttgctt-tggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
 |||||||| ||||| || || || || ||||| ||||| ||  |||  || || ||||| |||||| |||| ||||||||||||||| |||| ||||||||| |   || ||  |   ||     |||   | |||   |  |  |  || || |     ||  |||  ||||| |  || ||||| |    ||| | |                                                                                    
ACTTGGGGATTGTGGGCGAGCTGCCATCCAAACACAAGGCTCGGCAAGTAACCCCTTTGGTTCTACTCTTGTATATGGTTATCAAAATATTGCCTTTGAGgtgtgtccttttttgtacttatagtgtcccactatttcaatagtttagtctgctatgatgcttttaagagaccacta--attttctggtgatgtta-gcag-----------------------------------------------------------------------------------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: GLYMA11G07910.1 (Glycine max), 5'ss of exon 13
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctttatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
 |||||||| ||||| || || || || ||||| ||||| ||  |||  || || ||||| |||||| |||| ||||||||||||||| |||| ||||||||| ||  ||        ||   | | | | || | || ||    ||  ||||    || |      | || |  ||| | |||       |  ||| |  |    ||  |    ||                                                               
ACTTGGGGATTGTGGGCGAGCTGCCATCCAAACACAAGGCTCAGCAAGTAACCCCTTTGGTTCTACTCTTGTATATGGTTATCAAAATATTGCCTTTGAGgtgtgtcctt--------ctttgtacttatattgtcctctg----ctattttaatagtttagt----ctactatgatgctttgaagagaccacttatattct--ggtgatatttgcag--------------------------------------------------------------

upper sequence: Vv04s0023g02970.t01 (Vitis vinifera), 5'ss of exon 13
lower sequence: AT3G51130.1 (Arabidopsis thaliana), 5'ss of exon 13
CCTTGGGGACTGTGGCCGTGCAGCTATTCAAACGCAAGGTTCTACAAACAATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttattgatgaatactcaatccatgtgttttgctttggaaacttctt-tatctattcaaagcaaccaccaccatgttctgattgctttatgtatttcgttaaatggcacaatcaattttcaatttcttcagtttatgggtgaggagattcttaacaaagatcttgctgatactgcag
 || ||||| ||||| |  ||||||||||| |||||||| || || | ||| || ||||||||||| | ||||||||| ||||| |||||||| ||||||||     |||  ||  || | |  | |  |    |   || ||  ||| || |||   | || |      |     |  || || | | || |  ||||| |                                                                               
ACTCGGGGAATGTGGGCCAGCAGCTATTCAGACGCAAGGCTCAACGAGCAACCCTTTTGGATCTACATATGTGTATGGCTATCAGAATGTTGCTTTTGAGgtaatgcatttttg--taataaccctagattcagtaactttgatccttgttatatacttgcagactgttaagtgaaactttatgttgggttaaaatattt-gcag----------------------------------------------------------------------------

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|110716734|gb|EE091976.1|EE091976
EST:     ATCCATTTGGATCTACTTTTGTGTATGGTTACCAAAATGTTGCATTTGAG                         GTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
genomic: ATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttatt ... gatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
EST: gi|30330416|gb|CD013678.1|CD013678
EST:     ATCCATTTGGATCTACTTTTGTGTATGGTTACCAAAATGTTGCATTTGAG                         GTAATGAAGAATGGATATATTGCAACTGTAACTTTTTTCCAGTCGTGATTA
genomic: ATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttatt ... gatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
EST: gi|30329939|gb|CD013201.1|CD013201
EST:     ATCCATTTGGATCTACTTTTGTGTATGGTTACCAAAATGTTGCATTTGAG                         GTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA
genomic: ATCCATTTGGATCTACTTTTGTGTATGGTTATCAAAATGTTGCATTTGAGgtgggttatt ... gatactgcagGTAATGAAGAATGGATATATTGCAACTGTAACTCTCTTCCAGTCGTGATTA