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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaatattttgtttctcattttcaatgtcctggtgattctgttatgaggtccaaagagtgtgttttgatctgatatgcttatctcattcaaagtctcttacaatgacag

Basic information

species Vitis vinifera
transcript Vv19s0085g00720.t01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: LOC_Os12g10784.1 (Oryza sativa), 5'ss of exon 5
TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaatattt-tgtttctcattttcaatgtcctggtgattctgttatgaggtccaaagagtgtgttttgatctgatatgcttatctcattc--aaagtctcttacaatgacag---
|||||| | ||||| ||||| || |||||||| || |||||||||||||||||||| |||||  ||   | |    ||  | |  |||  |  |   |  || | ||   | |  ||  ||  |      | |  | |  |   | |    |||||  ||    |  ||   ||  |    
TGTGAAGCCGTTGGAAGAGTGGCCGACATCATACAAATTCCAGCTTTCCTCTGTCGCCAGgtacaaatgagacaaatggattttttttgtagcgaattattg-tgctacca-gcagtataagcacgactctgtagtttacttcacattctgcattcctaacacatactatggtgttaacag

upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GRMZM2G168510_T02 (Zea mays), 5'ss of exon 6
TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgt-------tgaaccaatattttgtttctcattttcaatgtcctggtg-attctgttatgaggtccaaagagtgtgttttgatc-tgatatgcttatctcattcaaagt--ctcttacaatgacag
|||||| | ||||| |||||||| |||||||| ||||||||||| ||||||||||| |||||       ||||| ||    || | | |      || | |  |  |  |||     ||||  | |||   |  | |||  | | || | ||  | | | ||  |||     |  ||  |||||||
TGTGAAGCTGTTGGAAGAGTTGCTGACATCATACAGATTCCAGCCTTCCTCTGTCGCCAGgtacagttttgaacaaaagaattttctgtggacaccagttttttcatatatttaagcatgac-tgcaatctgcatatttgtaccatgttctgaatctttaatgtaaacatattactatgatgacag

upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA18G48370.1 (Glycine max), 5'ss of exon 5
TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaatattttgtttctcattttcaatgtcc-tggtgattctgttatgaggtccaaagagtgtgttttgatctgatatgcttatctcattcaaagtctcttacaatgacag-
 ||||| ||||||||||||||||||| ||||||||||||||||| ||| | ||||| || ||  |    || | |||  | ||| ||||||| ||| |  | ||| | |  | |       |     |||    |  | |     |||| |||||||   | | |   |||||||| 
-GTGAAGCAGTTGGCAGAGTTGCAGATATCATTCAGATTCCAGCATTCTTGTGTCGCCAAGtaaat---atctattgcat-tcaatttcaatatccattataattttctggttaaaattttaatagatgtgccaacttcaa----ttatttcattcattttatttc-taatgacaga

upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: GLYMA09G38010.1 (Glycine max), 5'ss of exon 6
TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaatattttgtttctcattttcaatgtcc-tggtgattctgttatgaggtccaaagagtgtgttttgatctgatatgcttatctcattcaaagtctcttacaatgacag
|||||| ||||||||||||| ||||| ||||||||||||||||| ||| | ||||| || ||  ||    ||||   ||   || ||||||| ||| |  | ||    |  | |      || ||  |||    |  | |     |||| ||||| ||  |  |||   |||||||
TGTGAAGCAGTTGGCAGAGTAGCAGATATCATTCAGATTCCAGCATTCTTGTGTCGCCAAgt-aaatgtttattgcatt---caatttcaatttccattataataggctggttaaaatttaatag-atgtgccaacttcaa----ttatttcatt-aattttgcttcttatgacag

upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 5'ss of exon 5
lower sequence: AT1G79500.5 (Arabidopsis thaliana), 5'ss of exon 5
TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaatattttgtttctcattttcaatgtcctggtgattctgttatgaggtccaaagagtgtgttttgatctgat--atgcttatctcattcaaa--gtctcttacaatgacag--
|||||| |||||||||  |||||||| || |||||||||||||| ||| | ||||| |||||   ||   ||   ||| | |  |  |||| |   | |    |   ||   |  |    |   ||  ||   ||||| |  ||| ||   | ||| ||   ||   ||  |||  ||   
TGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGgtgagactc-taaactgtattt--tcctcaaagcttttgattgtagctttcaaactgtcgatcttggattgatatctgttctatggttga-tgatttaagttgttaattgtaattccacag

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|110708160|gb|EE085385.1|EE085385
EST:     TTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG                         ACAGATCTCCTAGTCGCTGCTGCCAAGACTGGAAAAATTATCAATATTAAG
genomic: TTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaa ... acaatgacagACAGATCTCCTAGTCGCTGCTGCCAAGACTGGAAAAATTATCAATATTAAG
EST: gi|30252416|gb|CB969967.1|CB969967
EST:     TTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG                         ACAGATCTCCTAGTCGCTGCTGCCAAGACTGGAAAAATTATCAATATTAAG
genomic: TTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAGgttgaaccaa ... acaatgacagACAGATCTCCTAGTCGCTGCTGCCAAGACTGGAAAAATTATCAATATTAAG