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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCTGAGTACAAAAAACCATATATAAGCCTCATGGATGGCATTACAATGGGTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAGgtataatggccatatatggacataaatttgttttgcaacttcaattagaataatgttctaatttctgatatttatttgtactaatttgtttcag

Basic information

species Vitis vinifera
transcript Vv11s0016g04290.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g04290.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os06g39344.2 (Oryza sativa), 5'ss of exon 4
TTCTGAGTACAAAAAACCATATATAAGCCTCATGGATGGCATTACAATGGGTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAGgtataatggccatatatg-gacataaatttgttttgcaacttca--attagaat----aatgttctaatttctgatatttatttgtactaatttgtttcag------
|  |||||| | |||||| |||||| |||| ||||||||  | |||||||| |||||||||||| | || || ||||| |||||||| ||| | || |||| |   | |  || | ||  ||    ||||   ||  |  ||||  ||| | ||    | | ||  ||||       |  |  ||| |  ||    | | |      
TCATGAGTATACAAAACCTTATATATGCCTGATGGATGGTGTGACAATGGGATTTGGAATTGGATTATCAGGGCATGGCCGCTACCGCATTATTACTGAGgcaagtttgaaatttctgtaactctgatttagattttatgttcatcatttgtattctcagtatttgaattgtaaggctcaaaatgttcgcatgcactactgttacag

upper sequence: Vv11s0016g04290.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G047564_T02 (Zea mays), 5'ss of exon 4
TTCTGAGTACAAAAAACCATATATAAGCCTCATGGATGGCATTACAATGGGTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAGgtataatggccatatatggacataaatttgttttgcaacttcaattagaataatgttctaatttctgatatttatttgtactaatttgtttcag
   ||||||   |||||| |||||| || | ||||||||  | |||||||| ||||||||||| || || || ||||| |||||||| ||| | ||||||| | | |     | |    |  ||  ||||||||  || |||| ||| |  |||  | | | | || || ||  || ||      |  || |||
ACATGAGTATGCAAAACCTTATATATGCTTGATGGATGGAGTGACAATGGGATTTGGAATTGGGCTATCAGGGCATGGCCGCTACCGCATTATTACAGAGgca-attttttgtctcca-atttatgtttgtttt-taatttca-ttatataaattctttgaatactcatcttgcttggtgtatcatcattgcag

upper sequence: Vv11s0016g04290.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G04460.1 (Glycine max), 5'ss of exon 4
TTCTGAGTACAAAAAACCATATATAAGCCTCATGGATGGCATTACAATGGGTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAGgtataatggccatatatggacataaatttgttttgcaa-cttcaattagaataat-gttctaatttctgatatttatttgtactaatttgtttcag
|||||| ||||| || |||||||||||| |||||||||| || || |||||||||||||||||  | ||||||||||| ||||| || ||  | ||||||||||  |  ||     |||  |||  | | |  |  |  | | ||||    |  | | ||  |||| |||  ||| ||| |  |      ||  ||
TTCTGATTACAAGAAGCCATATATAAGCTTCATGGATGGAATAACTATGGGTTTTGGAATTGGTTTATCTGGTCATGGCCGCTATCGCATCATAACAGAGgtatgctcacc-----tggcaatagttgtctcgtttagtcatgaattgccgttgtagatcctatttatgacttttctttttcattcacatttatag

upper sequence: Vv11s0016g04290.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G35260.1 (Glycine max), 5'ss of exon 4
TTCTGAGTACAAAAAACCATATATAAGCCTCATGGATGGCATTACAATGGGTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAGgtataatggccatatatggacataaatttgttttgcaacttcaattagaataatgttctaatttctgata----tttatttgtactaatttgttt-cag
|||||| ||||| || ||||| |||||| |||||||||| || || |||||||||||||||||  | ||||||||||| ||||| || ||  | ||||||||||  | ||     ||||  |||   |||  | |     |||  |  | |  ||| |||  | |||||     ||| ||| | | ||    ||| |||
TTCTGATTACAAGAAGCCATACATAAGCTTCATGGATGGAATAACTATGGGTTTTGGAATTGGTTTATCTGGTCATGGCCGCTATCGCATCATAACAGAGgtatgctcgc-----atggcaatag--ttgcctcgtttagtca--tgaattgctgtgctagatcctgattgaccttttttttttcaaacacatttacag

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|110699628|gb|EE076795.1|EE076795
EST:     ATGGTCGTTACCGGATTGTCACAGAG                         AGAACTCTTCTTGCCATGCCAGAAAATGGAATTGGCTTGTTTCCAGATGTT
genomic: ATGGTCGCTACCGGATTGTCACAGAGgtataatggc ... tttgtttcagAGAACTCTTCTTGCCATGCCAGAAAATGGAATTGGCTTGTTTCCAGATGTT
EST: gi|161717741|gb|FC066584.1|FC066584
EST:     GTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAG                         AGAACTCTTCTTGCCATGCCAGAAAATGGAATTGGCTTGTTTCCAGATGTT
genomic: GTTTTGGAATTGGACTGTCTGGTCATGGTCGCTACCGGATTGTCACAGAGgtataatggc ... tttgtttcagAGAACTCTTCTTGCCATGCCAGAAAATGGAATTGGCTTGTTTCCAGATGTT
EST: gi|110399519|gb|EC966027.1|EC966027
EST:     GTCATGGTCGCTACCGGATTGTCACAGAG                         AGAACTCTTCTTGCCATGCCAGAAAATGGAATGGGCTTGTTTCCAGATGTT
genomic: GTCATGGTCGCTACCGGATTGTCACAGAGgtataatggc ... tttgtttcagAGAACTCTTCTTGCCATGCCAGAAAATGGAATTGGCTTGTTTCCAGATGTT