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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCCAGCCCATGCTCATGCTTGGGATCACTGTTGGAGTAGCTCTCAGTGTTGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGGgtgtgtcaaattctcatccctttattccaatgttaactttttttttttttatcaatcggtagatccccagatcatttgtcatcagtatatgttacgataatctctgtcaagatgattctttcaaatttattgaataatttatgactctggatcag

Basic information

species Vitis vinifera
transcript Vv08s0007g04230.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g04230.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os03g51650.1 (Oryza sativa), 5'ss of exon 3
TTCCAGCCCATGCTCATGCTTGGGATCACTGTTGGAGTAGCTCTCAGTGTTGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGGgtgtgtcaaattctcat-----ccctttattccaatgttaactttttttttttttatcaatcg-gtagatccccagatcatttgtcatcagtatatgttacgataatctctgtcaagatgattctttcaaatttattgaataatttatgactctggatcag
|||||||||||||||||||| ||||||||  | ||||| |  ||||| ||  ||||||| |||||||| || ||| |||||||||| || || ||||| ||| |||  |  |  ||         || |   | || |     |||| |     | ||  | | ||        |||||  | |  ||   | | ||||  | |   ||   || |    |                                        
TTCCAGCCCATGCTCATGCTCGGGATCACAATCGGAGTCGAGCTCAGCGTCATCTTCCCCTACTGGCTCATCACCGTCCTCATCATAATCCTCTTCATAGgtttgtacagctaacaaatgtgttgttaagcacgatctggcgcttttgtggcgctgtcctttgcgtgccctgtgagatcgct-gagattgatgtgtgtt-tggtgcgcttgatcgattgcag---------------------------------------

upper sequence: Vv08s0007g04230.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA10G07420.1 (Glycine max), 5'ss of exon 3
TTCCAGCCCATGCTCATGCTTGGGATCACTGTTGGAGTAGCTCTCAGTGTTGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGGgt--gtgtcaaattctcatccctttattccaatgttaactttttttttttttatcaatcggtagatccccagatcatttgtcatcagtatatgttacgataatctctgtcaagatgattctttcaaatttattgaataatttatgactctggatcag
|||||||| |||||||||||||| ||||||||||| || |||||||||||||||||||||||||||||||| ||  | |||||||||||||| ||||| |||  |||| | |     |     |  ||||||| || | |  |   |||||   | |  |  | |   | |  |  |||    ||| | | ||  |  |  |  |  ||         | ||| |   || || |                      
TTCCAGCCTATGCTCATGCTTGGAATCACTGTTGGTGTTGCTCTCAGTGTTGTCTTCCCTTACTGGCTTATCACTGTTCTCATCATCATTCTCTTCATAGgtcagtgtaataactaaaaaaaatacttccaattttgaatagtcaatttttaggccacagtcatagaacaatgt--tttagtctcattttttgaaaaaaagaaattggta--------ttttttattgttgttcag---------------------

upper sequence: Vv08s0007g04230.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G21310.2 (Glycine max), 5'ss of exon 3
TTCCAGCCCATGCTCATGCTTGGGATCACTGTTGGAGTAGCTCTCAGTGTTGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGGgtgtgtcaaattctcatccctttattccaatgttaactttttttttttttatcaatcggtagatccccagatcatttgtcatcagtatatgttacgataatctctgtca---agatgattctttcaaatttattgaataatttatgactctggatcag
|| ||||| |||||||||||||| |||||||| || || |||||||||||||||||||| ||||||||||| ||  | |||||||||||||| ||||| ||| |||  | |                 ||    || |  ||    ||||   |||   |  ||     |  ||   |||||    |  ||||     | | | ||  |   | || |||  ||   | || |||   |                   
TTTCAGCCTATGCTCATGCTTGGAATCACTGTCGGTGTTGCTCTCAGTGTTGTCTTCCCCTACTGGCTTATCACTGTTCTCATCATCATTCTCTTCATAGgtatgtgtagt-----------------aaaaaaaattacttgcaattttg--aataaatcaatttttgggccaca-gtcatagaaaagtgttgtttcattatttgaaaaagaaataatttgtttttaatttttgtgcag------------------

upper sequence: Vv08s0007g04230.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA19G37360.1 (Glycine max), 5'ss of exon 3
TTCCAGCCCATGCTCATGCTTGGGATCACTGTTGGAGTAGCTCTCAGTGTTGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGGgtgtgtcaaattctcatccctttattccaatgttaactttttttttttttatcaatcggtagatccccagatcatttgtca-tcagtatatgttacgataatctctgtcaagatgattctttcaaatttattgaataatttatgactctggatcag
|| |||||||||||||||||||| || |||||||| || |  ||||||||||||||||| |||||||| || ||| | || || || ||||| ||||| |||  ||     | |      | | |   |     ||  |||  ||        || |      |    | | || || | | |  || |||| |   | |       |  |   | ||||||||   || ||||                      
TTTCAGCCCATGCTCATGCTTGGTATTACTGTTGGTGTCGTCCTCAGTGTTGTCTTCCCCTACTGGCTCATCACCGTTCTTATTATTATTCTCTTCATTGgtcagtgtctctgtttgttatctgtattagcagaaaagtttacttgcaaaccaaaccatgttttggataaaccagttcttagttggtctatgctgaaaaa----tgatggaataggttctttca--ctttttgacag-------------------

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|110727350|gb|EE104013.1|EE104013
EST:     TGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGG                         GGACTTCAACGAGGTCTTTCTTTAAGGCAGTCCAGATGTGGAATGAAGAGA
genomic: TGTCTTCCCTTACTGGCTTATAACCATCCTCATCATCATTCTGTTCATGGgtgtgtcaaa ... tctggatcagGGACTTCAACGAGGTCTTTCTTTAAGGCAGTCCAGATGTGGAATGAAGAGA