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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATGCCATGGAGAAAGCAATTAAAAACAAAGTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgattttcagacttcattgttgtgtttgtaatcag

Basic information

species Vitis vinifera
transcript Vv10s0116g00490.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00490.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 5'ss of exon 4
GATGCCATGGAGAAAGCAATTAAAAACAAAGTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgattttcagacttcattgttgtgtttgtaatcag
||  | |||||||| ||  | || |||||||| |||||||||||||||||||| |||||||| ||||| || || || ||||  |  ||| | | | |||  | |  |  ||| | |||||| |  ||   |  ||     || || || || |  | |       
GAATCAATGGAGAAGGCTGTAAAGAACAAAGTGGCCAAAGCAGTTGTACCTGCTATTGATGTGATGTTTCAGGCACTTAGgtaagctcatagttgtattt--ttgccatcctgttatattttttttttg--tacttcattaacatctttcttctactag-------

upper sequence: Vv10s0116g00490.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G068755_T03 (Zea mays), 5'ss of exon 4
GATGCCATGGAGAAAGCAATTAAAAACAAAGTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgatttt-cagacttcattgttgtgtttgtaatcag
|| || |||||||| ||  | || |||||||| || ||||||||||||||||| |||||||| ||||| ||||| ||||||| ||| | | | |   | |  |  |  | ||| |||      | |||      | || |  || |  ||  | || | |       
GAAGCTATGGAGAAGGCTGTGAAGAACAAAGTGGCTAAAGCAGTTGTACCTGCTATTGATGTGATGTTTCAAGCACTAAGgtatgttcctagctagttctttt--actccctgatttcgcaagttcttgtaaactcttaccaacatgtttcctctgctag-------

upper sequence: Vv10s0116g00490.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GRMZM2G070126_T01 (Zea mays), 5'ss of exon 4
GATGCCATGGAGAAAGCAATTAAAAACAAAGTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcattgatt-tctttgctggaaactctgctttattttatgcttagctgatttt-cagacttcattgttgtgtttgtaatcag
||  | |||||||| ||  | || |||||||| || ||||||||||||||||| |||||||| ||||| ||||| || |||| ||| | | | |  |  ||  | |   | ||| |||  |   | |||  |   | || |  || || ||  | || | |       
GAATCTATGGAGAAGGCTGTGAAGAACAAAGTGGCTAAAGCAGTTGTACCTGCTATTGATGTGATGTTTCAAGCACTCAGgtatgttcctggctggttcttctttggctcactgatttggtaagttcttgtcaactcttaccaacatctttcctctgctag-------

upper sequence: Vv10s0116g00490.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA15G29520.1 (Glycine max), 5'ss of exon 1
GATGCCATGGAGAAAGCAATTAAAAACAAAGTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgattttcagacttcattgttgtgtttgtaatcag
||||| ||||||||||| || |||||||||||||| ||||| || |||||| | || ||||||||||| |||||  ||||||||| |   |  ||  |       | |   | ||||  ||| |  |||    || || |    | ||| || | | ||     ||
GATGCAATGGAGAAAGCGATAAAAAACAAAGTTGCTAAAGCGGTGGTACCTACAATAGATGTTATGTTTCAAGCTTTAAGgtttgagatctctttgatgcaacatatataatacttttcttttt--ttaatgaatgttaaacaattattattttttatgctgctag

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|34549765|gb|CF517997.1|CF517997
EST:     GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAG                         TGAATTTGGGGCGAAGGTTGTTCCACC
genomic: GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcat ... ttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACC
EST: gi|34550714|gb|CF518932.1|CF518932
EST:     GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAG                         TGAATTTGGGGCGAAGGTTGTTCCACC
genomic: GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcat ... ttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACC