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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaattttagatgtttgtttattgggtatcttcattgattgagcactaattgagttccatgttttctatttggttttatgctgatgcctgaatatggat...

Basic information

species Vitis vinifera
transcript Vv02s0012g00090.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os10g41534.3 (Oryza sativa), 5'ss of exon 1
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgta---aattttagatgtttgtttattgggtatcttcattgattgagcactaattga-gttccatgttttctatttggttttatgctgatgcctgaatatggat
|||  ||||| |  || || ||||| || |||||||| ||||| ||  | ||||| |||||| |||||||||| |||||  |||| || |||||||||||||     | |  |  | | | |||  |  |   || |  || | ||| | |  |    |||      ||     |||    ||       || ||  ||||   
AGAGCCATGGGTATGGCGTGCACACCTGCGAGGATGGCAGCCGCTACATTGGGGAATTCAAGAGGGGTGTCAAGCATGGACTTGGCCACTACCATTTCAGgtgtgggactgaacttatatatttcatttgctgctgc-ctgctagagaatttgtcattgttgtgaaattagctgttgcaactagttaagagcatgtttatg---

upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G148180_T03 (Zea mays), 5'ss of exon 1
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaattttagatgtttgtttattgggtatcttcattgattgagcactaattgagttccatgttttctatttggttttatgctgatgcctgaatatggat
|||  ||||| |  || |||||||| |||||||| || ||||||||||| || ||||||||| |||| ||||| |||||  | || || |||||||||||||        ||   |||||     | ||   | ||         |||  |    |   |  |  ||  ||||   |   | |      |  || || | 
AGAGCCATGGATATGGCGTTCACACCTGTGAGGACGGTAGCCGGTATGTTGGTGAGTTCAAGAGGGGCGTCAAGCATGGTCTCGGCCACTACCATTTCAGgtgtggaactgaaaattgttgtgaagttagagttatgtgcaacttactgctgtgctaataaatgatcattttgccatacagataggcattttatgtgaag

upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G399484_T01 (Zea mays), 5'ss of exon 1
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgta--aattttagatgtttgtttattgggtatcttcattgattgagcactaat-tgagttcca--tgttttctatttggttttatgctgatgcctgaatatggat
|||  ||||| |  || || ||||| |||||||| || ||||||||| | |||||||| ||| |||| ||||| |||||  | || || |||||||||||||   ||  | | || |   |||  |   | |  |||    ||    | |  | |||  |  |  | | | | | ||  |  | |||| ||   |||  ||    
AGAGCCATGGGTATGGTGTGCACACCTGTGAGGACGGTAGCCGGTATATAGGGGAGTTTAAGAGGGGCGTCAAGCATGGTCTCGGCCACTACCATTTCAGgtgtgaaactgaaatctgcatttcctat-tgtactcacgattttgtgattgttgtgaagttgagttatgtgcaacttactgctgtgctaataaatgataat----

upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G15940.1 (Glycine max), 5'ss of exon 1
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaattttagatgtttgtttattgggtatcttcattgattgagcac-taattgagttccatgttttctatttggttttatgctgatgcctgaatatggat
||  |||||| |  ||||| ||||||||    ||||| ||||| ||||| ||||||||||| ||||| |||||||||||  |||| || |||||||||||||   ||||   | ||| ||| ||   | |  |  |||  || |||  |  || ||||       |  |      | || |     | | | | |    ||
AGTGTCATGGGTTTGGAGTCCACACTTGCATTGATGGCAGCCGCTATGTTGGGGAGTTCAAATGGGGAGTCAAACATGGACTTGGACAGTACCATTTCAGgttt-ttttctttttttcttttttcaatttgctatttgtctgtgcagatgctttagttgttgtgatgttggaaaatgttgtttgtttactttagtccttat

upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA05G05640.1 (Glycine max), 5'ss of exon 3
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaattttagatgtttgtttattgggtatcttcattgattga-gcactaattga---gttccatgttttctatttggttttatgctgatgcctgaatatggat
                  | ||||||||    ||||| ||||| ||||| |||||||||||  ||||||||||||||||  | || || |||||||||||||    |||   | ||| |  |||    || |   |     || ||  || |||    ||| ||   | |  ||||  |||  | ||      | | ||     
------------------TCCACACTTGCATTGATGGCAGCCGCTATGTTGGGGAGTTCAAAAGGGGTGTCAAACATGGACTCGGACAGTACCATTTCAGgtgtggtttttct-tttctcaatttacaatttgtgtctgcagatgctttagttgtaatgttgcaaaatcttaatttactttagtcctttaatgttactaga---

upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT2G35170.1 (Arabidopsis thaliana), 5'ss of exon 1
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaattttagatgtttgtttattgggtatcttcatt---gattgagcactaattgagttccatgttttctatttggttttatgct-gatgcctgaatatggat
||   ||||| || || ||  | || | ||||||||| ||  | ||||  || ||||||||||||||||||||||||||  |||||  |||||||||||||| |   ||   |  || |||| |  | ||  |||||   | ||  | | ||     || |  ||   | || | |||  |    | ||| |||| |||||   
AGTGCCATGGTTGTGGTGTATATACCTCTGAGGATGGAAGTAGATATGACGGAGAGTTCAAGTGGGGTGTCAAACATGGCCTTGGTAGTTACCATTTCAGgtcagcattg--ttcttttttactctgcatagtcatttgagtttctggaatatggttgtgctttgacctgtaat-ggtggtgcattagatccctgtatatgtt-

upper sequence: Vv02s0012g00090.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT4G17080.1 (Arabidopsis thaliana), 5'ss of exon 1
AGACTCATGGCTGCGGAGTTCACACTTGTGAGGATGGGAGCCGGTATGTGGGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaattttagatgtttgtttattgggtatcttcattgattgagcactaattgagttccatgttttctatttggttttatgctgatgcc--tgaatatggat----
|||  |||||||| || ||  | || | ||||||||| || || | ||| || ||||| || |||||||||||||||||  |||||||||| |||||||||| |   ||      || |   ||  | |     | || || |||  |  |     |    ||  ||| ||| ||   |||||  || |  | | | ||       
AGAGCCATGGCTGTGGTGTGTATACCTCTGAGGATGGTAGTCGTTTTGTTGGAGAGTTTAAATGGGGTGTCAAACATGGCCTTGGTCATTATCATTTCAGgtgagaattcatcagttttaacttttgcaga---aatggtttagcttt--tcagtgtatgggtgatct-tttagtcccatgctattgacgttaagtgtgaccggtt

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|110719219|gb|EE096948.1|EE096948
EST:     GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTT---                         CAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
genomic: GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaatttta ... taatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
EST: gi|37183599|gb|CF602953.1|CF602953
EST:     GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAG                         -A-AA-TGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG
genomic: GGGGAGTTCAAGTGGGGTGTCAAACATGGGTTTGGTCATTACCATTTCAGgtaaatttta ... taatatatagCAGAAATGGCGACATGTATGCTGGAGAATATTTTGCTGACAAGATGCATGG