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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcattttcaggatgtctggctattcttccctgcacatcagttcttgtaatagtgaacagacattacctgaaaccaattattttttgtccaccag

Basic information

species Vitis vinifera
transcript Vv18s0001g01020.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: LOC_Os06g37180.1 (Oryza sativa), 5'ss of exon 10
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcattttcag-gatgtctggctattct-tccctgcacatcagttcttgtaa-tagtgaacagacattacctgaaaccaattattttttgtccaccag
|||||||||||||| ||||| || |||||||| ||||| ||||| |||||  ||  ||||||||| || |||||||| ||| |||| ||||||||||||||||| || |   ||||    ||| | |  |  || | |  |  |||  ||  | |  | | || |  | | ||||     | |    ||| ||  |          
ATGTATACTGATCTGGCAACCATATATGAGCGAGCTGGGCGTATTGAAGGAAGATCAGGCTCCATTACCCAAATTCCCATTCTAACAATGCCTAATGATGgtaa-gtgactgtttttgttgatttatttcagttttatatcaccaccacaactatcttgagtattctataaacatgttgcgtataagatttttcctgaagt-----

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G181151_T01 (Zea mays), 5'ss of exon 10
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgt----aatgttagcattttcaggat-gtctggctattcttccctgcacatcagttcttgtaatagtgaacagacattacctgaaaccaattattttttgtccaccag
|||||||||||||| |||||||| |||||||||||||| ||||| |||||  ||| ||| ||||| || |||||||||||| | || |||||||||||||||    ||   | || |||| |   | ||     |||   |   || |   |||  || ||  |||||   |||   |  || |  |  |   |     | |||    
ATGTATACTGATCTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGGTCCATTACCCAAATTCCTATTCTGACAATGCCTAATGATGgtaagtaaccatggcttttttatctttgttattatataactatatgaagggcagacctagtg-tagtggttaga-gctgtctca--ctga--gtcaccaggccatg--

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GRMZM2G094497_T03 (Zea mays), 5'ss of exon 1
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcat-tttcaggatgtctggctattctt-ccctgcacatcagttcttgta-atagtgaacagacattacctgaaaccaattattttttgtccaccag
|||||||||||| | |||||||| |||||||||||||| ||||| |||||  ||| ||||||||| || || ||||||||| |||| |||||||| |||||||| || | ||| | |       |||   |||| |     | |     | || |  ||  |   | |  |  |||   |     || |||| || ||  |     
ATGTATACTGATTTGGCAACAATATATGAGCGTGCTGGGCGTATTGAAGGAAGAACAGGCTCCATTACCCAGATTCCTATTCTAACAATGCCTAACGATGgtaa-gtaaccatgtcttttttaatctttatattataattatactttataattatactatgtgccgtattgttattggttttgtacacttatcttctgaac-----

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: AT1G76030.1 (Arabidopsis thaliana), 5'ss of exon 10
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcattttcagg---atgtctggctattcttccctgcacatcagttcttgtaatagtgaacagacattacctga--aaccaattattttttgtccaccag
||||| |||||||||||||| |||||||| |||||||| |||||||||||  ||||||| |||||||| |||||||| ||  | || ||||| ||||| |||||  | | | || | | |   ||  || | |  | ||   |   | | ||       |||  | |   |   ||   |||  ||   || |               
ATGTACACTGATCTTGCAACTATTTATGAACGTGCTGGGCGTATAGAAGGAAGAAAAGGTTCCATCACCCAAATTCCAATCCTCACTATGCCCAATGACGgtaaaatcatctttcttaagccaatccctagattctattttttat-cttgagaaaactcaattcttactcgttgttgtttgacaaattgatcag--------------

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: AT1G20260.1 (Arabidopsis thaliana), 5'ss of exon 10
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcattttcaggatgtctggctattcttccctgcacatcagttcttgtaatagtgaacagacattacctgaaaccaattattttttgtccaccag
|||||||| ||||||||||| |||||||| || || |||||||| |||||  |||| || ||||| || ||||| |||||  | || ||||| ||||| |||||| ||     ||| |   | | ||| |     ||| | || ||||  | || |   | | |||| |  | |  | | |    || || ||    |  |||
ATGTATACAGATCTTGCAACTATTTATGAACGCGCGGGACGTATTGAAGGAAGAAAGGGTTCCATTACCCAAATCCCTATCCTGACTATGCCCAATGACGgtaatttt-----ttttatcgtttttggat-----tccattcatatcaaatgttttttgattaaacaaagctca--taatatttcttgttattaaaac-tcag

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: PP1S425_12V6.1 (Physcomitrella patens), 5'ss of exon 9
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaa------tgttagcattttcaggatgtctggctatt--cttccctgcacatcagt-tcttgtaatagtgaacagacattacctgaaaccaattattttttgtccaccag-----------------------------------------------------
|||||||||||||| || || |||||||| ||||||||||| || ||||| || ||||| || || || || ||||||||| |||| ||||| ||||||||| |      |  |  | || |||  | || |   ||||  ||| | |  | ||  |  | ||    |  |  |      || |         | |   |   |||  | |                                                      
ATGTATACTGATCTGGCCACCATTTATGAACGTGCTGGACGAATCGAAGGCCGTAAAGGATCTATTACTCAGATTCCTATTCTAACTATGCCGAATGATGgtcagttgcatccttcctttgtcatcaagtttcagtatttgctttctttgaaatgggcattttactttgttatattatttttgctctttcttgactgcgtgcagtcttcgactgtggacttctccttgtctgtactaagcttcacctttgtggcatttcgtgcag

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: PP1S100_117V6.1 (Physcomitrella patens), 5'ss of exon 10
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcat-------tttcaggatgtctggctattcttccctgcacatcagttcttgtaatagtgaacagacattacctgaaa-----------ccaattattttttgtccaccag------------------------------------------------------------------
||||| || |||||||| || |||||||| |||||||||||||| || || || ||||| || || || || || || |||||||| ||||| || || |||||| ||||| |       || | | || | ||     |   | ||||  || || | ||    ||||        |   | |  ||           || | |||||| | ||  |  |                                                                  
ATGTACACCGATCTTGCCACCATTTATGAACGTGCTGGACGTATTGAGGGCCGTAAAGGATCTATTACTCAGATCCCAATTTTAACTATGCCCAACGACGgtaattttagcctcaaactcttgctgaatttttgtaagattagcgctgccgattagcttttcctttagttctttttgaccgcttacaagtgccagtcgccctactattttctttctgcatgaatgcctttcttttgagcctctaatcttcttctttttaatctcttttgtccctacgttctccgcag

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: EFJ13375 (Selaginella moellendorffii), 5'ss of exon 9
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcattttcaggatgtctggctatt--cttccctgcacatcagttcttgtaatagtgaacagacattacctgaaaccaattattttttgtccaccag
|||||||| ||| | ||||||||||| |||||||||||||| || ||||| ||||  || || ||||| |||||||| ||| | |  ||||| || |||||||      |  |  |||    |     ||| |  ||| |  |||                                                            
ATGTATACAGATTTGGCAACAATTTACGAGCGTGCTGGACGAATTGAAGGACGAATGGGATCAATCACTCAAATTCCCATTCTCAGTATGCCAAACGATGgtacgagatgtctgatcatcgagatcatctactgacttactcgcag-----------------------------------------------------------

upper sequence: Vv18s0001g01020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: EFJ11911 (Selaginella moellendorffii), 5'ss of exon 9
ATGTATACTGATCTTGCAACAATTTATGAGCGTGCTGGACGTATAGAAGGGCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttagcattttcaggatgtctggctatt--cttccctgcacatcagttcttgtaatagtgaacagacattacctgaaaccaattattttttgtccaccag
|||||||| ||| | ||||||||||| |||||||||||||| || ||||||||||  || || ||||| |||||||| ||| | |  ||||| || |||||||      |  |  |||    |     ||| |  ||| |  |||                                                            
ATGTATACAGATTTGGCAACAATTTACGAGCGTGCTGGACGAATTGAAGGGCGAATGGGATCAATCACTCAAATTCCCATTCTCAGTATGCCAAACGATGgtacgagatgtctgatcatcgagatcatctactgacttactcgcag-----------------------------------------------------------

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|33402236|gb|CF207863.1|CF207863
EST:     GCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATG                         ATATTACGCATCCAACTCCAGATCTTACTGGTTATATTACTGAGGGCCAGA
genomic: GCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttag ... tgtccaccagATATTACGCATCCAACTCCAGATCTTACTGGTTATATTACTGAGGGCCAGA
EST: gi|37184152|gb|CF603506.1|CF603506
EST:     GCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATG                         ATATTACGCATCCAACTCCAGATCTTACTGGTTATATTACTGAGGGCCAGA
genomic: GCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttag ... tgtccaccagATATTACGCATCCAACTCCAGATCTTACTGGTTATATTACTGAGGGCCAGA
EST: gi|110421897|gb|EC988201.1|EC988201
EST:     GCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATG                         ATATTACGCATCCAACTCCAGATCTTACTGGTTATATTACTGAGGGCCAGA
genomic: GCGAAAAGGCTCCATCACACAAATTCCTATTTTAACCATGCCTAATGATGgtaatgttag ... tgtccaccagATATTACGCATCCAACTCCAGATCTTACTGGTTATATTACTGAGGGCCAGA