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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacaggatggttctatctgtgcttccgttatgtcttcacctatatccaatgattaaagcatatcaaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag

Basic information

species Vitis vinifera
transcript Vv06s0061g01170.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacag-----gatggttcta-tctgtgcttccgt-tatgtcttcacc-tatatc--caatgattaaagcatat-caaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag
 |||||||| ||||||||||| || |||||||| || || || ||  | |||||||| |||||||| || || || ||||||||  | ||||||||| |||||||||  |       |  ||  || | | || |||  | ||||| ||     ||  |    |||| ||    || || |    | |  |  |  ||| |  | |   | |  ||    || | ||    || |   |     ||||  |  ||||    |    |    |||
TATGCATCTTGATGCTGAAAAGGAGATGATGTCCCAGTGCGTGGCTCTTCTTGGGAAGTTTATTGCAGTTCGGGAACCAAATATTAGGTATCTTGGTCTGgtaagttgtactttgcaacagtaatactgtttgattctatatatgtttttttggtactttggtaatgtttcgttcacattcctgatagtctataa-atgcttcattcgcattaaatccccgtgagtgaaaactttgccataatgtgat--ggtatttcatctgtctt--cacag

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 10
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacaggatggttctatctgtgcttccgttatgtcttcacctat--atccaatgattaaagcatatcaaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag
||||||||||||||||||||| || |||||||| || ||||| ||  | |||||||| |||||||| || || |||||||| || || || |||||| |||||| || ||       |  || | | |||   | |   |||   ||     ||      | | | ||  |    |  |  | ||   | | | |  |||||    |    |      ||| | |                                        
CATGCATCTGGATGCTGAAAAGGAGATGATGTCACAGTGTGTGGCTCTTCTTGGGAAGTTTATTGCAGTCCGGGAGCCAAACATTCGGTACCTTGGTCTGgtaa-ttgcatttcttattaatgtttacttgattaacaccttttgctggcagtcttgctttcacatcaagttgtgcaagtgtacaatttatcata--ttgaaacagtaatcgatccatctttcag----------------------------------------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G700148_T01 (Zea mays), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacaggatggttctatctgtgctt---ccgttatgtcttcacctatatccaatgattaaagcatatcaaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag
|||||||||||||||||| || || |||||||| || ||||| ||  | |||||||| |||||||| || || |||||||| || || || || ||| |||||| || ||       |  || | | |||    | || ||    ||    |        || ||    |   |   |   ||  ||||| ||   |    ||| |||  || |    |                                               
CATGCATCTGGATGCTGAGAAGGAGATGATGTCACAGTGTGTGGCTCTTCTTGGGAAGTTTATTGCAGTCCGGGAGCCAAACATTCGGTACCTCGGTCTGgtaa-ttgcatttcttattaatatttacttaatgccttttgctggcagtcttgcttccgcatcaagttgtgcaagtgtaaaatctaccatattgagacagtaatcgatccatctttcag-----------------------------------------------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacagga-----tggttctatctgtgcttc-----cgttatgtcttcacctatatccaatgattaaa--------gcatatcaaa---ctggcatgcaccatgttagaatt-tgaatggattgatgtcattgcttgctgtctaactgcatgatt--------tgacatttagattactctgctgcag
 |||||||| |||||||||||||| ||||||||||||||||| ||  | ||||| |||||||||||||| || || ||||| || ||||||||||| |||||||||    ||      | | |  |||  |  |||       || |   || |  | | |   | |     |        ||||  | ||   |||   |  |     |||  ||  |  | || ||| ||    || | | ||||  | ||||   |         | |||| ||   || | || |||||
GATGCATCTTGATGCTGAAAAAGAGATGATGTCTCAATGTGTGGCTCTTCTTGGAAAATTTATTGCTGTCCGTGAACCAAACATTCGATATCTTGGCTTGgtaagtcggggggcatacttgattaatccatatttctcttttcttgttcttttatttctgtttgaaggagggacaaggattgcatgcccaatttctgcagtagatttcattatcatagtagaaggcttggtggtggtggtggttgtcataatgcaatgtcccagttcataacatatatgctattatggtgcag

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA12G30520.1 (Glycine max), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacagga-----tggttctatctgtgcttccgttatgtcttcacctatatccaatgattaaagcatatcaaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag
 |||||||| |||||||||||||| ||||||||||| ||||| ||  | ||||| |||||||||||||| || || ||||| || ||||||||||| ||||||||||   ||      | | |  ||||||  |||  || | |  |    | | |    |  ||    |   |  ||  || | |  | | | | | ||                                                                    
GATGCATCTTGATGCTGAAAAAGAGATGATGTCTCAGTGTGTGGCTCTTCTTGGAAAATTTATTGCTGTCCGTGAACCAAACATTCGATATCTTGGCTTGgtaagttggggggcacacttgattaatctgtatttctcttttcttgtttttttttttttttttttttttctgtttgaa--gggaggggcaaggattgcatgc------------------------------------------------------------------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacaggatggttctatctgtgcttccgttatgtcttcacctatatccaatgattaaagcatatcaaactggca-tgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag
||||||||| |||||||| || ||||||||||| || ||||||||  | ||||| || |||||| |||| || ||||| || ||  ||||||| || ||||| || |         ||  ||     |||||  |   |||   | ||  |  ||   | |     ||   |  ||| | ||||  ||||      |      | ||| || ||    |||| |                                        
CATGCATCTTGATGCTGAGAAGGAAATGATGTCACAGTGTGTTGCTCTTCTTGGCAAGTTTATTTCTGTCCGTGAGCCCAACATCAGATATCTAGGCTTGgtgagatc--------ttgcatacccacttcc--tgcatctaagcttagctagaacagtaatttgttaagtatttggtagtgcattatgtggcttctcatgatgcttgttgacaaca-ttgcag----------------------------------------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacaggatggttctatctgtgcttccgttatgtcttcacc-tatatccaatgattaaagcatatcaaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatttgacatttagattactctgctgcag
||||||||| |||||||| || ||||||||||| || ||||||||  | ||||| || |||||| |||| || ||||| || ||  ||||||| || ||||| || |   | ||    ||  |||    |  |    |         | | |  | || ||   |  |    |  ||          ||  | ||||  |                                                                
CATGCATCTTGATGCTGAGAAGGAAATGATGTCACAGTGTGTTGCTCTTCTTGGCAAGTTTATTTCTGTCCGTGAGCCCAACATCAGATATCTAGGCTTGgtgagatcttgcataccacttcctgcatctaagcctagctggagtagtttgtgaagtggttggtggtttctca--tgatgcattttttgacaaaattacag---------------------------------------------------------------

upper sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: PP1S26_36V6.1 (Physcomitrella patens), 5'ss of exon 9
CATGCATCTGGATGCTGAAAAAGAAATGATGTCTCAATGTGTTGCCTTGCTTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttacaggat-----ggttctatctgt-----------gcttccgtta------tgtcttcacctat-atccaatgattaaagcatatcaaactggcatgcaccatgttagaatttgaatggattgatgtcattgcttgctgtctaactgcatgatt--tgacatttagattactctgctgcag----
 ||||| |||||||| || || ||||||||||| ||||| || |  ||| | |||||||||||| |||| || ||||| || ||||| ||  | ||||||||||||      ||       | | || ||            || || |||       ||  ||   ||   ||| ||  ||||    | || |||   | |  |  |  | | |    | ||||  ||   || |||   || ||   |      || |   | | |||    |   | || | ||     
GATGCACCTGGATGCCGACAAGGAAATGATGTCGCAATGCGTAGTGTTGTTGGGGAAATTTATTTCTGTTCGGGAGCCCAACATACGTTACTTGGGTTTGgtaagtgttgaaattctaaattcccatttgatgaattacgaagcgtcggtttgtcagctgcttttttctgcgatctaaatattaggaaacataaaataagaa--cctcgaggtggttgctaaatgtgttttggtgattcggtgatgcacataaaggtggtccctcagattctagtgcttttgattcacacag

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|71857368|gb|DT006423.1|DT006423
EST:     TTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTG                         GAAAACATGACTCGGATGCTGATGGTGTCCGATGTGCAGGATATTATTAAA
genomic: TTGGGAAATTTATTGCTGTACGAGAGCCAAATATACGATATCTTGGTTTGgtaagttaca ... tctgctgcagGAAAACATGACTCGGATGCTGATGGTGTCCGATGTGCAGGATATTATTAAA