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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttattgtcaagttatgtattaaatgaatgttcttctggatgtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtag

Basic information

species Vitis vinifera
transcript Vv11s0016g00530.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g00530.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os07g01930.1 (Oryza sativa), 5'ss of exon 6
GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttattgtcaagttatgtattaaatgaatgttcttctggatgt-ggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtag
|||||||||||||||||||||| ||||| || |||||||| || || |||||| | |  | |  |   ||   ||   | | | || |||  | | | | |    |||   | |||  | |  |   |  | || | |||  ||                        
GAGCATGTGAAGGTTCACTTGCGTGTTCAACCTGTCATGTCATAGTTATGgtatgct-ctatataaccattcctttttttattatttttcatgctattgtagagattgaagtgccacta-actagccatttcaattttgtccag------------------------

upper sequence: Vv11s0016g00530.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM5G856338_T01 (Zea mays), 5'ss of exon 2
GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgtt-attgtcaagttatgta---ttaaatgaatgttcttctggatgtggatttcttgttcttccaggagatcattgaactgaagtatgtggagcctaactgttgagtctcggtgtag
|||||||||| ||||||||||| ||||| || |||||||| || || |||||| | | | | |  | || |  |   ||| || ||| | ||  | |   ||   || |  || || |||    |  |          | ||||  ||  |  ||||| |           
GAGCATGTGAGGGTTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATGgtatgctcactatatactttttcaaatttatattaatatactattagtaatgccattttattttttacagtgttttttcc--------tttgtgtggctca--tgttggg-----------
















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|110379961|gb|EC945192.1|EC945192
EST:     GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATG                         GACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttatt ... ctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
EST: gi|30252686|gb|CB970237.1|CB970237
EST:     GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATG                         GACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttatt ... ctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
EST: gi|71887854|gb|DT036909.1|DT036909
EST:     GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATG                         GACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC
genomic: GAGCATGTGAAGGTTCACTTGCCTGTTCCACATGTCATGTGATTGTGATGgtacgttatt ... ctcggtgtagGACATGGAATACTACAATAAATTGGAAGACCCAACTGATGAGGAAAATGAC