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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaacctattattttagatttggttgtcatcattttatttataggtttttctttcttagatttgatgttttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA

Basic information

species Vitis vinifera
transcript Vv05s0049g01230.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0049g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os08g34480.1 (Oryza sativa), 3'ss of exon 3
gtaagtaacctattattttagatttggttgtcatcattttatttataggtttttctttcttagatttgatgttttgtgtgg--gcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA
|||||||   | || ||  | | |        ||  | || ||   |   | |  |  |||||  |||| | ||| | |    ||||||||||||| || || |||||  | |||||||||||||| ||| |||| ||||| ||  | ||||| |||||| | |||||||| || ||||||||||||
gtaagta-tatctttttccaaaataaacaaaaat-gtgttgttgggaa--tgtagtaacttagtattgaggatttcttttattgcagTGAATGGGCAGTAAACATCCAAAGGGATAGCTATGCATCCTATATTGGGCACTATCCAATGCTGGCATATTTTTCCATTGCTGAGAATGAATCAATTGGA

upper sequence: Vv05s0049g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G17590.1 (Glycine max), 3'ss of exon 2
gtaagtaacctattatttt-----agatttggttgtcatcattttatttataggtttttctttcttagatttgatgt---tttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA
|| |||   || |   | |     |  |||  |||| |   ||  |  |||   ||  ||||| ||   |||   ||   | |||||  ||||||| ||||| ||||| || || ||||||||||||||||||||| |||| |||||||| |||||||  |  ||||||||||||||||| ||||| ||||||
gtgagttttctctctctcttccccaattttttttgttaattttaaaactatttattaatcttttttttcttttgcgtgggtgtgtgtctgcagTGAGTGGGCAGTGAACATTCAACGTGATAGCTATGCATCATATATTGGGCACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA

upper sequence: Vv05s0049g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G40200.1 (Glycine max), 3'ss of exon 2
----------------gtaagtaacctattattttagatttggttgtcatcattttatttataggtttttctttcttagatttgatgttttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA
                 |   |   |    |||||   |||  || | |   | ||  |||   |||| | |||||| |  |   |||   ||||| ||||||| ||||| ||||| || || || |||||||||||||||||| |||| |||||||| |||||||  |  ||||||||||||||||| ||||| ||||||
gtgagtttctctctctctcccttttccccaattttttgtttatttttaaaattatttgttaaccgtttgtttttctttgtgtgcgtgt---gtgtgtgcagTGAGTGGGCAGTGAACATTCAACGAGATAGCTATGCATCATATATTGGACACTACCCTTTACTGGGATTCTTTGCTATTGCTGAAAATGAATCTATTGGA

upper sequence: Vv05s0049g01230.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G14342.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaagtaacctattattttagattt--ggttgtcat---cattttatttataggtttttctttcttagatttgatgttttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA
|| |||  | | | |||||||  ||    || | ||   |||| | ||||| || |  |  ||  | || |||  ||||     |  |||||| ||||| ||||| || ||||||||||| ||||| |||||  |||| ||||||||  | ||  | || |||||||||||||| ||||| || ||||||
gtgagtttcttttgattttagtgttcaaatttttatatgcattgtttttattggctactaatttgtggaattg--gtttaaatggtacagTGAGTGGGCTGTGAACATTCAGCGTGATAGTTATGCTTCATACATTGGTCACTACCCTATGCTTTCATACTTTGCTATTGCTGAGAACGAGTCTATTGGA

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|110416715|gb|EC982713.1|EC982713
EST:     CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|110686941|gb|EE063919.1|EE063919
EST:     CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|32459229|gb|CD800403.1|CD800403
EST:     TCTGCAAGCAAAATATGTTGGAACTGGTCACATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: TCTGCAAGCAAAATATGTTGGAACTGGT--CATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|110687101|gb|EE064219.1|EE064219
EST:     CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|110394837|gb|EC960188.1|EC960188
EST:     CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|110731061|gb|EE108849.1|EE108849
EST:     CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|110419282|gb|EC985499.1|EC985499
EST:     CATCTGCATGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
EST: gi|110695800|gb|EE074233.1|EE074233
EST:     CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATT                         TGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA
genomic: CATCTGCAAGCAAAATATGTTGGAACTGGTCATGCTGACTTGAATAGATTgtaagtaacc ... gtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatcattttatttataggtttttctttcttagatttgatgttttgtgtgggcagTGAATGGGCGGTGAATATCCAGCGTGATAGCTATGCATCATATGTTGGCCACTACCCCTTACTGGCGTATTTTGCTATTGCTGAAAACGAATCAATTGGA
                                 atttgat  putative branch site (score: 5)
     attttatttataggtt  TA-rich tract