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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagttggtctcatttttccgttctaattcttatatttgttgcaatcctgggaacaattag

Basic information

species Vitis vinifera
transcript Vv06s0009g02790.t01
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 5'ss of exon 12
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatac----aagttatca---tcaccactgatatttggg-----aagtcaattattatttccctagtta--tcaagtt-ggtctcatttttccgttctaattcttatatttgttgcaatcctgggaacaattag
|||||||| |||||||||||  ||||||| ||||||||||||||||| ||   |||||||||| |||| |||||||||||||| ||||||||| |      ||| | |   ||| |  ||| |  |  |     ||   || | ||  ||   ||   |  ||  ||| ||| | | |   ||   ||||  | | | | | ||  |  | ||    ||     
CTTGTAGGAACTGATCATTGCACCTTCAACTCCACACAGAAAGCTTTCGGCTCTGATGATTTCAGAAAGATTCCTAATGGTGTTAATGgtaatccttgtgggttgtgaatttcaacgttgacaaataagtatataaaagaacttttgattttataaggaattcgtgtttggtttgaataaacccagctaaggcatctctctcttaaacgcttgaccccag----

upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 9
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagttggtctcatttttccgttctaatt-cttatatttgttgcaatcctgggaacaattag
|||||||| |||||||| ||  | ||||| ||||||||||||||||||||   ||||||||| || || ||||| |||||||| |||||||         |   |   |    || || | |  || | |      |    ||  |||  ||      ||  |  |  || || | | |||  |                          
CTTGTAGGTACTGATCACTGCACATTCAACTCCACACAGAAAGCTTTTGGTTCTGATGATTTTCGGAAGATTCCCAATGGTGTAAATGgtaggg------actctggacttaaatgttagagtggt-agtaggatctgtaatatgtattgagaca---tctctcctgagtcctgactacttgaacacag---------------------

upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA15G06100.1 (Glycine max), 5'ss of exon 9
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaat-acaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagt-tggtctcatttttccgttcta-attcttatatttgttgcaatcctgggaacaattag
|| ||||| ||||||||||||||||| |||||||| ||||||||| ||||||||||||| ||||| ||||||||||||||||||||||||||| ||| | |   ||  ||   |||||||   |    || |    | |   |  || | || | |   ||   |  |  | | |  |  || |||| ||| |                   
CTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAGAAAGCTCTTGGAATTGATGACTTCCGGAAAATTCCTAATGGTGTCAATGgtaatcacatgatgg-atggccctagatatttcc-agcctaaatgcattctagttgattttgaaatatctccttcctaatgtgctttgcaacctgatatatgtag-------------------

upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA08G18920.1 (Glycine max), 5'ss of exon 10
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaat-acaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagt-tggtctcatttttccgttcta-attcttatatttgttgcaatcctgggaacaattag
|| ||||| |||||||  |||||||| |||||||| ||||||||| ||||||||||||| ||||  ||||||||||||||||||||||||||| ||| | |   ||   |   |||||||   |    || |    | |   |  || | || | |   || | |  |  | | |     || |||| | | |                   
CTGGTAGGAACTGATCGGTGTGCCTTTAATTCCACCCAGAAAGCTCTTGGAATTGATGACTTCCAGAAAATTCCTAATGGTGTCAATGgtaatcacatgatgg-atggtcctagatatttcc-agcctaaatgcattctagttgattttgaaatatttccttactaatgtgctttgcgacctgatatctatag-------------------

upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA14G04030.1 (Glycine max), 5'ss of exon 9
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagttggtctcatttttccgttctaattcttatatttgttgcaatcctgggaacaattag
|| ||||| ||||||||||||||||| |||||||| || ||||||  |||||| ||||| ||||| ||||| ||||||||||||||||||||| ||    || |    |   |||||||| |   | |||   | | |  ||  || | || |  || || ||  |    |  ||| |    |  ||| |                   
CTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGAATCGATGACTTCCGGAAAATGCCTAATGGTGTCAATGgtaat-ca---catgaaagtcttggatatttgtggcctaaatgcat-tcttgctgattttgaaat--gtttccttactgatatacaatgca---acctgtag-------------------

upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA02G44690.1 (Glycine max), 5'ss of exon 9
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagttggtctcatttttccgttctaattcttatatttgttgcaatcctgggaacaattag
|| ||||| ||||||||||||||||| |||||||| || ||||||  |||||| ||||| ||||| ||||| ||||||||||||||||||||| || || |   ||      || ||||| |   | ||| |   | |  ||  || | || |               ||| | || || ||||   |||||| |    |         
CTGGTAGGAACTGATCATTGTGCCTTTAATTCCACCCAAAAAGCTCGTGGAATCGATGACTTCCGTAAAATGCCTAATGGTGTCAATGgtaat-cacgtgaaagtcttg---gacatttgtggcctaaat-acattcttgctgattttgaaat---------------gttttcatactgatatacattgcaaactgtag---------

upper sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 9
CTTGTAGGGACTGATCATTGTGCCTTCAATTCCACACAGAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaagttatcatcaccactgatatttgggaagtcaattattatttccctagttatcaagttggtctcatttttccgttctaattcttatatttgttgcaatcctgggaacaattag
|||||||| |||||||| ||  | |||||||| ||||| |||||| | ||| ||||||||||||| | ||| ||||||||||| ||||||||||           |   |||| | | | |    ||  |  | | | |||  | || |  ||       ||  ||  |  ||  | | ||| |||                       
CTTGTAGGAACTGATCACTGCACTTTCAATTCTACACAAAAAGCTCTAGGACTTGATGATTTCCGCAGAATACCTAATGGTGTTAATGgtaata------gctgacttgactggtttcttgctt-tctctgctcactgcccctgctaacctgtaa-----atacttttgaacttgtccatatgtttag---------------------

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|30137635|gb|CB922973.1|CB922973
EST:     GAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATG                         GTATTGAGGAGAGGATGCATCTGGTTTGGGACACAATGGTG
genomic: GAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaag ... gaacaattagGTATTGAGGAGAGGATGCATCTGGTTTGGGACACAATGGTG
EST: gi|30131395|gb|CB916734.1|CB916734
EST:     GAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATG                         GTATTGAGGAGAGGATGCATCTGGTTTGGGACACAATGGTG
genomic: GAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaag ... gaacaattagGTATTGAGGAGAGGATGCATCTGGTTTGGGACACAATGGTG
EST: gi|30295952|gb|CB972746.1|CB972746
EST:     GAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATG                         GTATTGAGGAGAGGATGCATCTGGTTTGGGACACAATGGTG
genomic: GAAAGCTTTTGGAATTGATGATTTCCGAAAAATTCCTAATGGTGTCAATGgtaatacaag ... gaacaattagGTATTGAGGAGAGGATGCATCTGGTTTGGGACACAATGGTG