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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactgttttgctggttgtgatcttatcagttgaccattcattttggtactttacaagtaaacatctcttaaatagGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA

Basic information

species Vitis vinifera
transcript Vv06s0004g01310.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os08g23810.2 (Oryza sativa), 3'ss of exon 7
----------------------gtactgt-tttgctggttgtgatcttatcagttgaccattcattttg-gtactttacaagtaaacatct--cttaaat---agGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA
                         ||||  || ||| | |||||   || | ||| |||| | | ||  |   |  || | | | || ||  ||    |   |||| || || || || ||||||||||| |||| ||| |||||||| ||| | || ||||| |||||||||| ||| ||||| ||  ||   ||| ||||||
gtatagtgcctctgcctatattcctctgtgcttactgctagtgatgaaatta-ttgtccatacgtgttacgctttcaactaatgatcacctacctctgtttgaagGTAACAAAACCACTATTGGAGACATCAAGAAGAGGGTATCTTGCTGCACTGTCAGCATCGAGTTACTCCTTCGTCTCTTTGCTTCAGCACTTCCTTCCTA

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G125052_T01 (Zea mays), 3'ss of exon 5
--------------------------------gtactgttttgctggttgtgatcttatcagttg-accattcattttggtactttacaagtaaacatctcttaaat---agGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA
                                || | |      ||||   | | ||    ||   ||  | |||| |   ||  |   |  || ||  | | |  |   |||| || || ||| ||||||||||||| |||| ||| |||||||||||||| || ||||| ||||||||||| ||||| || ||  ||  |||| ||||||
gtacaatatcgcactcgcctgtgtatatgtgtgtgcagcgggtgtggtgcagcttttgcttgtgacactgtacattgtctaaccatcttaaaaaccacatgtcattttgaagGTAACAAAACCTTTGTTGGAGACATCAAGAAGAGGCTATCTTGCGGCAATTTCAGCATCGAGTTACTCCTATGTTTCATTGCTTCAGCATTTCCTTCCTA

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G070422_T03 (Zea mays), 3'ss of exon 7
-------------------------------gtactgttttgctggttgtgatcttatcagttgaccattcattttggtactttacaag-----taaacatctcttaaatagGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA
                                ||| |   ||   | ||      | ||   ||||  ||  | |    |  ||| ||      || |    | ||    |||| || |||||| ||||||| || || |||| ||| |||||||||||||| |||||||| ||||||||||| ||||| || ||  ||   ||| ||||||
gtacaatctccctgtcgctgtgtatatgtgcatacagcggtgt--gctgcagctctttcctgtgacactttgtctaaccatcttaaaaaccacctatattcattttgtgaagGTAACGAAGCCTTTGTTGGAAACCTCAAGAAGAGGCTATCTTGCGGCAATTTCTGCATCCAGTTACTCCTATGTTTCATTGCTTCAGCACTTCCTTCCTA

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 7
gtactgttttgctggttgtgatcttatcagttgaccattcattttggtac------tttacaagtaaacatctcttaaatagGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA
||||  |        |  | | | |   ||||      | | |||||||       || | ||  |   | |||| | |||||||||||| ||  |||||||||||||  | ||||| |||||||| |||||||||||||| ||||||||||| |||||||||||||||  |||  |||| |
gtacaataaattcattaataagcattgaagttcttttatgaatttggtatatgactttaataaaaagtaaactctgatatagGTGACCAAACCATTGTTGGAGACATCTCGGAAAGGATATCTTGCTGCAATATCTGCATCTAGTTACTCCTATGTTTCTTTACTCAAGCATTTTCTTCCAA

upper sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 8
gtactgt---tttgctggttgtgatcttatcagttgaccattcattttggtac------tttacaagtaaacatctcttaaatagGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA
||||  |   |    |  |  | | | |   ||||      |   |||||||       || | ||| |   | |||| |  ||||||||||| ||  |||||||||||||  | || || |||||||| |||||||||||||| |||||||| || |||||||||||||||  |||  |||| |
gtacgataaatacattaataataagcattgaagttcctttatgcatttggtatctggttttaataagaatttaactctgatgtagGTGACCAAACCATTGTTGGAGACATCTCGGAATGGGTATCTTGCTGCAATATCTGCATCTAGTTACTCATATGTTTCTTTACTCAAGCATTTTCTTCCAA

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|77583292|gb|DV220679.1|DV220679
EST:     ATTTTGGCAGCATTGATATCCTTGTGCACTCACTTGCCAATGGGCCGGAG                         GTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGCTATCTTGCGGCAATA
genomic: ATTTTGGCAGCATCGATATCCTTGTGCACTCACTTGCCAATGGGCCGGAGgtactgtttt ... tcttaaatagGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttatcagttgaccattcattttggtactttacaagtaaacatctcttaaatagGTGACCAAGCCTCTGTTGGAGACATCCAGAAAAGGTTATCTTGCGGCAATATCTGCATCAAGTTACTCCTACGTTTCTTTACTCAAGTGTTTCATTCCTA
       agttgac  putative branch site (score: 4)
                                         catctctt  putative PPT
               attcatttt  TA-rich tract