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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGCATGCAATGCTCATACCATTTGTGATGGTGAACTAAGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAGgtaagtgctttagtggattaacttgtgtcaatttttcatccttctgctgttggctctgctaaatgattccagtgtcatag

Basic information

species Vitis vinifera
transcript Vv18s0001g03730.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g03730.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os03g49730.3 (Oryza sativa), 5'ss of exon 6
CTTGCATGCAATGCTCATACCATTTGTGATGGTGAACTAAGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAGgtaagtgctttagtggattaacttgtgtcaatttttcatccttctgctgttggctctgctaaatgattccagtgtcatag---------------------
 |||| ||||| ||||||||||| ||||||  |||||| || || ||||| ||||||||||| |||||  | || |||||||||||||||| | |    || |   |||      ||  |   |   |||| |   | |    | |  ||||| |||    |  |||                       
TTTGCCTGCAACGCTCATACCATATGTGATCCTGAACTGAGGCCCCTTGGGACTGGACTATACCCTGTTTTATCTATTATTAACCACAGgtga-tatactattcctttattcatcgtttagcatct-tcctccgattttatcatttaataaataattattattgcatctaccctttcctggtatacttag

upper sequence: Vv18s0001g03730.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G457881_T03 (Zea mays), 5'ss of exon 6
CTTGCATGCAATGCTCATACCATTTGTGATGGTGAACTAAGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAGgtaa-gtgct---ttagtggattaacttgtgtcaatttttcatccttctgctgttggctctgctaa-atgattccagtgtcatag----------------------------
 |||| |||||||| |||||||| |||||   |||||| || || ||||| |||||||| || |||||||| || ||||||||||||||||    ||||    || | | |  |  |   |  || | | ||| ||      || |  |   ||| ||    |||   ||                                
TTTGCCTGCAATGCGCATACCATATGTGACCCTGAACTTAGGCCTCTTGGGACTGGACTGTACCCTGTCATATCCATTATTAACCACAGgtcgtatgctaaactattagctatatattcatttatctattatctttaccagattagagcaattaatatatcaccaccttctctattcatccattttttttgggtatattcag
















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|30136335|gb|CB921673.1|CB921673
EST:     AGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAG                         CTGCTTGCCCAACTCTGTTTTGGTATTTGAGGAAAGGTTAGCAGTGGTCCG
genomic: AGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAGgtaagtgctt ... agtgtcatagCTGCTTGCCCAACTCTGTTTTGGTATTTGAGGAAAGGTTAGCAGTGGTCCG
EST: gi|30126004|gb|CB911343.1|CB911343
EST:     AGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAG                         CTGCTTGCCCAACTCTGTTTTGGTATTTGAGGAAAGGTTAGCAGTGGTCCG
genomic: AGACCGCTTGGTACTGGACTATATCCTGTCATTTCAATTATTAACCACAGgtaagtgctt ... agtgtcatagCTGCTTGCCCAACTCTGTTTTGGTATTTGAGGAAAGGTTAGCAGTGGTCCG