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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCGGATGCGGGAAACTTGGAGCATTGTGCCAAGTATTTGAACCAGACGCTCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtggttgtttgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtag

Basic information

species Vitis vinifera
transcript Vv11s0052g00890.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os08g14460.1 (Oryza sativa), 5'ss of exon 2
CGCGGATGCGGGAAACTTGGAGCATTGTGCCAAGTATTTGAACCAGACGCTCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtggttgtttgtggattgtttt-----------gtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtag-----
|||||| ||||| ||| | ||||| || |||| |||  | |||||||||||||| || ||||| |||||||||||||||||||| ||||||  ||| || ||  ||     ||  ||     |   | |            | |  |||  ||| |  |||| |||||       |   | |   || ||||  |     
CGCGGACGCGGGGAACCTCGAGCACTGCGCCAGGTACCTCAACCAGACGCTCGTCACCTTCGGCTTCCCGGCCTCGCTCGATCTCTTCGCCACCGACCCCgtagggttccttttcttcctcctctctctcccccctcctgatctactttgcggattttggttctgatttccctagtgccgtgagatttgtggggggttta

upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G147500_T05 (Zea mays), 5'ss of exon 3
CGCGGATGCGGGAAACTTGGAGCATTGTGCCAAGTATTTGAACCAGACGCTCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtggttg-tttgtggattgttttgt-gtggttttgggagtggg-----gttttgattgttgcg-tttttgcgcttttggtggtag--------
|||  | ||||  ||| ||||||| || |||  |||  |||||||||||||||| || |||||||||||||| || ||||| || ||||||  ||||||||| |    |  |   | | |     |  | |  |  | ||   |  |  |      ||| | | |  | | ||| |  |||| || |  | |        
CGCAAACGCGGAGAACCTGGAGCACTGCGCCCGGTACCTGAACCAGACGCTCGTCACCTTCGGATTCCCGGCATCTCTCGACCTCTTCGCCACCGATCCGgtccttcctcttccctctctcccccggctcgcagctgcttcacgtttatgtattcatttcggtcgcgggggtttgtttgcttatgattttcggggtttaa

upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA17G07040.2 (Glycine max), 5'ss of exon 3
CGCGGATGCGGGAAACTTGGAGCATTGTGCCAAGTATTTGAACCAGACGCTCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtgg-----------------ttgtttgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttg------gtggtag
||| |||||||  || ||||||||||| || |||||| | |||||  ||||||| ||||| || |||||||| ||||||||||| |||||    || || ||| | | ||                  ||   |||| |||||||| || |    ||   || |  |    ||| |     |  |||  |||||      |||||||
CGCCGATGCGGACAATTTGGAGCATTGCGCTAAGTATCTCAACCAATCGCTCGTCACGTTTGGTTTCCCGGCTTCGCTCGATCTCTTCGCAAATGACCCCgtgagtattgaactgatcccgttccgtctttcatgtgcattgttttttgcgccaatgtatgtagtatgcacattatgtgaatgatgctgttttgaaaaatgtggtag

upper sequence: Vv11s0052g00890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT5G57410.3 (Arabidopsis thaliana), 5'ss of exon 3
CGCGGATGCGGGAAACTTGGAGCATTGTGCCAAGTATTTGAACCAGACGCTCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtggttgtttgtggattgttttgtgtggttttgggagtggggttttgattgttgcgtttttgcgcttttggtggtag
 ||| ||| ||  ||||||||||||||| | ||||||||||| |||||| | || || || ||||| || |||||||||||||| ||  |    ||||| ||  |   |  || ||  ||  |    |||| ||| | |     ||||||||| |||   |  ||| |  | ||| |       
TGCGAATGAGGATAACTTGGAGCATTGTACGAAGTATTTGAATCAGACGATGGTTACATTTGGATTTCCCGCCTCGCTCGATCTCTTTTCGAATGATCCTgtaggttcttattattgatgc-tgaaattgtttggatgttt---tggggttttaattagggtttttgtttgatttag-------

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|294964330|gb|GW838133.1|GW838133
EST:     TCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCG                         GTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGG
genomic: TCGTGACGTTCGGATTCCCGGCCTCGCTCGATCTGTTCGCCGGCGATCCGgtgcggagtg ... ttggtggtagGTTTCGATTGCGCGGACCTGTAATTGCATTTACTCTCTGCTGCAGCAGAGG