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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag

Basic information

species Vitis vinifera
transcript Vv06s0004g03810.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 7
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagtaaatt--attattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag
|||||||| || || ||||||||||| || || |||||||| || ||||| || || || ||||| || ||||| |||||||| ||||| ||||| |||||           | |      | | |||  ||| | |  | ||    ||||   ||   |  ||    |    |  | |  |  |    ||||    |        
GGCAGAGCGAGAGAGGCTGGGGAGATCAACAAGAGCTTGCTGACACTTGGTCGAGTCATCAATGCTCTTGTTGAACACTCTGGACATGTCCCATACAGgtaattctaaggacagtgtcctggcagatttgattctagaaacat----tttggcattttgccaagggtgttta-tatgttgctccatttaattgttccag-------

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G024576_T01 (Zea mays), 5'ss of exon 5
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttc--agtaaatt--attattggcatatgaggtttgattttgaact-tagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag
|||||||| || || ||||| ||||| || || || ||||| || ||||| |||||||||||||| || || ||||||||||| ||||| ||||| |||||   ||   |  | | |  |     |  ||  ||| | |  | | |  | |  ||  ||   | |    ||  |  ||    |                          
GGCAGAGCGAGAGAGGCTGGAGAGATCAACAAGAGTTTGCTCACGCTTGGTCGTGTTATTAATGCTCTAGTAGAGCACTCTGGACATGTACCATACAGgta---accctaagaatggcccttgacagctttgattttagtaacacgttgctcaatgatggtttatgtgtatctatttgtttcag-------------------------

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 5
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgc-ataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag
|| ||||||||||| ||||||||||||||||||||||||||||| ||||| || || |||||||| || ||||||||||| |||||||||||||||||||||||    |   || |  |   || |||| | | |  ||| |    ||| ||| |   || ||  |||    |      ||  |    |||       |||||||
GGTAGAGCAAGGGAGGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCTCTAGTTGAGCACTCAGGTCATGTTCCATATAGgtatgagtaactgcaacttttcttgtcaattctcaatttcatttttttttt-attattttctgagtgattttattattaagatatatcttattatt----atatcag

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA13G40580.1 (Glycine max), 5'ss of exon 6
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgc-ataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagat-tgcctgaa----atatcag
|| ||||||||||| |||||||||||||| |||||||||||||| ||||| || || ||||||||||| ||||||||||| |||||||||||||||||||| ||    |   || |  |  ||| |||| | | |  ||| |         || | || |||     ||  ||||  | ||||  ||||| |  || |     |||||||
GGTAGAGCAAGGGAGGCTGGGGAGATAAACAAAAGCTTGCTTACACTTGGACGAGTGATTAATGCGCTAGTTGAGCACTCAGGTCATGTTCCATATAGgtaagagtaactgcaacttttctagtcaattctcaatttcattt---------ttcttaa-ttatttcctggagtgattttattattaagatatatcttattattatatcag

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA11G15520.2 (Glycine max), 5'ss of exon 5
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag
|| ||||||||||||||||||||||||||||||||||||||||| ||||| || || |||||||| || ||||| || || |||||||| || ||||||||||||  || ||    ||||      ||||  |   | | |||  | |  |||  ||| |||| |   | |       ||||  |||||  ||    |||||||
GGTAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGTCGAGTGATTAATGCTCTAGTTGATCATTCAGGTCATGTGCCTTATAGgtatgaatggc-tacc--gttcttctggttatggt-aacttttgat-tctattttcaaacctagagaaaaatgcttttgtattattaagatgtcccattatatcag

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA12G07910.1 (Glycine max), 5'ss of exon 5
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag
|| ||||||||||||||||||||||||||||||||||||||||| ||||| || || ||||||||  | ||||| || || |||||||| |||||||||||||||  || ||    ||||      ||||  |   | | |||  | |  |||  ||| |||| |   | |       ||||  |||||  || |  || ||||
GGTAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACACTTGGTCGAGTGATTAATGCTTTAGTTGATCATTCAGGTCATGTGCCATATAGgtatgaatggc-tacc--gttctcctggttatggt-aacttttgat-tctactttcaaacctagagaaaaatgcttttgtattattaagatgtcccgttatgtcag

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT2G28620.1 (Arabidopsis thaliana), 5'ss of exon 5
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagtaaattattattggcatatgaggtttgattttgaacttagaaattgaggtgaggtaattaaaaagattgcctgaaatatcag
|| ||||| ||||||||||| ||||| || ||||| ||||| || ||||| ||||| || |||||  ||||||| |||||||||||  |||||||||||||  |     ||  |   |||| ||  |   | | || |    || |||||      |  ||    ||      | || |||| | | |||     |||| ||||
GGTAGAGCCAGGGAAGCTGGTGAGATCAACAAAAGTTTGCTCACACTTGGACGTGTCATAAATGCTTTGGTTGAACACTCTGGTCACATTCCATATAGgtaacagaaagattctgccttcaatatctctctctcggga----agttttgagacaagatctaatgtttctaaccatgtgattatacacattt----aaatttcag

upper sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G45850.1 (Arabidopsis thaliana), 5'ss of exon 6
GGCAGAGCAAGGGAAGCTGGGGAGATAAATAAAAGCTTGCTTACTCTTGGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactgcataattagttcagta-aattattattggcatatgaggtttg---attttgaacttagaaattgaggtgaggtaattaaaaagattgcc--tgaaatatcag
||  |||| || |||||||| ||||| || || || || ||||||||||| ||||| ||||| ||||| || ||||||||||||||| |||| || |||||  |  ||   | ||  |  |  |  || || | |    |    | | |     | || |   | |   |     |   |||     |   |||||   |||| | ||||
GGACGAGCCAGAGAAGCTGGAGAGATCAACAAGAGTTTACTTACTCTTGGCCGTGTCATTAACGCGCTTGTGGAGCACTCTGGTCATATTCCTTACAGgtacaag-tgatcacttgatagaaaacgataataagtaatctccttgttcttggtgtcttcagtattggtttgacattagagtatactcagctattgcttttgaattttcag

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|122690251|gb|EC949944.1|EC949944
EST:     GGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAG                         GGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAA
genomic: GGGCGTGTTATTAATGCGCTGGTTGAGCACTCTGGTCATGTTCCATATAGgtatgaactg ... gaaatatcagGGATAGCAAATTAACAAGGTTATTGAGGGATTCCTTGGGAGGGAAAACAAA