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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcaattcatgtctgatatcgttctagtaattaaattgtaaatgatcaggtgttgatttactaaatccctgtagcatatggttatatctgccaaattttattgatttttgggttttgcatgagcttcttttgtgtcactatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAG

Basic information

species Vitis vinifera
transcript Vv06s0004g01770.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g41020.1 (Oryza sativa), 3'ss of exon 3
gtatgcaattcatgtctgatatcgttctagtaattaaattgtaaatgatcaggtgttgatttactaaatccctgtagcatatggttatatctgccaaattttattgatttttgggttttgcatgagcttcttttgtgtcactatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAG
                                    ||| ||   || |||  | |||||||  |        | ||||  |  |||| || || |    ||| |  | ||    || || |||| || |         | | || ||||  ||| ||||  ||||||||| ||||||| ||||| ||||| || ||||| ||||| ||||||||||| |||
----------------------------------gtaatcgttcttg-tcaa-tcttgatttg-tgctgattggaagcacgtt-ttatttcagcgag---ttaattgtgttgctattatgaatgatctcca--------attttgggcagAAAGACCAGAGGCATTTGGTGCTGGCTCATCTTTTCGACAAGCCTTGCTTTCTAGGATTGCTTGCAGTTCAG

upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 3
------------------------gtatgcaattcatg--tctgatatcgttctagtaattaaattgtaaatgatca-ggtgttgatttactaaatccctgtagcatat-------ggttatatctgcca-----aattttattgatttttgggttttgca---tgagctt----cttttgtgtcactatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAG
                        |||||  |||| ||  |   | |   || |  | ||| ||   |||  | | |  |   ||  |||| |       ||   ||||       |  |     | |||     | ||||  | ||| | |     | ||   ||   ||     | |  |||   | | | |||||||||   || ||  | ||||||||||||||||||||||| || |||||  |||| ||||||||||| |||
gtaagttaactggtttgtttttctgtatgatattcttgaattgtagacttttttttttatttaagcataagggttaacagaaatggattacaatccataggtgagatattttacaagaattggcttaccagtaatagttttcattattatagcacacttcactttggaattaaagttgtcatgtttttctattcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAGTGCAG

upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 3
gtatgcaattcatgtctgatatcgttctagtaattaaattgtaaatgatcaggtgttgatttactaaatccctgtagcatatggttatatctgccaaattttattgatttttgggttttgcatgagcttcttttgtgtcactatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAG
                                           |  | | || | ||   |||| | |      |  | | |  |  | |     |  || ||   |   ||   ||| | || |   | | || |||   | | |||||||||||   || ||  | ||||||||||||||||||||||| || |||||  |||| ||||||||| | |||
-------------------------------------------atagtttagatatt---ttacaagaattggcttacctgtaatagttttcatta--ttatagc-acacttcactttggaatcaaagt-tgttatgtttttctatgcagGGAGATTCTAAGCACCTAGTGTTGGCTCACCTTTTTGACAAGCCATGCTTTTTAGGGTTGCTTGCAATGCAG

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|161721828|gb|FC070507.1|FC070507
EST:     AAGAAACTGGTGGCATGAATGATGTTCTTTACAGATTATACAGCATAACG                         GGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCATGCTTC
genomic: AAGAAACTGGTGGCATGAATGATGTTCTTTACAGATTATACAGCATAACGgtatgcaatt ... ctatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattttattgatttttgggttttgcatgagcttcttttgtgtcactatgtgcagGGAGATCAGAAACATTTGGTGTTGGCTCACCTTTTTGACAAACCGTGCTTCCTAGGTTTGCTTGCAGTACAG
      tattgat  putative branch site (score: 3)
     ttattgattttt  TA-rich tract