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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtataaaattgaattatgatggcttgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT

Basic information

species Vitis vinifera
transcript Vv17s0000g09500.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 5
gtaagtataaaattgaattatgatggct-tgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtt--tcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||| |  |||  ||||||     | |||  |  ||||       ||     ||  | ||||   ||    | ||||||  ||||| |  |   ||||| | |||||||||||||||||||||||| |||||||| |||||||||| ||| |||||||| || ||||  || || || ||| ||| || ||||||||
gtaagtacatcattagattatggcaattatgaactaaccaaaagagataaccccatgaagcttaaacatt----ggtgaatttgaatggatggtgggcagGTCTGTGAGAAGCTTGGACCAAGCTTATATGATTTTCTGCGGAAAAACAGTTACCGCTCATTCCCAATTGCCCTAGTTCGGGAGGTTGCCAAACAACTGT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 5
gtaagtataaaattgaattatgatggct-tg-atttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||| |   ||  |||||||    | || | |  |||||    |  |  || | || | ||||   || ||| ||       ||||||   | ||||| ||||||| |||||||||||||||||| ||||||||  ||||||||||||| |||||||| || ||||  || || || ||| ||| || ||||||||
gtaagtacattgttagattatgacaattatgcactgacccaaaaatataaccatat-ggtgcttaaacgttggtgaatttggattaatggtg--agcagGTCTTTGAGAGGCTTGGACCAAGCTTATATGATTTTCTGAGGAAAAACAATTACCGCTCATTCCCAATTGCCCTAGTTCGGGAGTTTGCCAAACAACTGT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G179308_T01 (Zea mays), 3'ss of exon 5
gtaagtataaaattgaattatgatggct-tgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||| |   ||  ||| ||     | |||  |  || |       ||   | ||| | ||||   || ||| ||       ||||||   | ||||| ||||||| |||||||||||||||||| |||||||| ||| |||||| ||| |||||||| || ||||  || || || ||||||| || ||||||||
gtaagtacattgttagattgtggcaattatgaactgacccaaaaagataaccatgtggtgcttaaacattggtgaatttggatcaatggtg--agcagGTCTTTGAGAGGCTTGGACCAAGCTTATATGATTTTCTGCGGGAAAACAGTTACCGCTCATTCCCAATTGCCCTAGTTCGGGAGATTGCCAAACAACTGT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G13440.2 (Glycine max), 3'ss of exon 4
gtaagtataaaattgaattatgatggcttgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||||    || | || ||||||  | ||||||||||||| || |||| |||||||||||||||        |||||| ||||||||| |||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
gtaagtat----ttaatttgtgatggaatcatttccccaattt-acaaataatttgggggttaagacaaca---gtgaatttaaatggttttaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTAT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G02740.3 (Glycine max), 3'ss of exon 4
gtaagtataaaattgaattatgatggcttgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||||    || | || ||||||  | ||||||||||||| || |||| |||||||||||||||   |    |||||| ||||||||| |||||||||||||||| |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| |||||| |
gtaagtat----ttaatttgtgatggaatcatttccccaattt-acaaataatttgggggttaagacaacg---gtgaatttaaatggttttaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAAACAACTAT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G36360.1 (Glycine max), 3'ss of exon 4
gtaagtataaaattgaattatgatggcttgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||||   ||||| || |||||| |||||||||||||| |     | ||  |||||||||||        | ||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||||||| |||||| ||||||||||||||||||||||||||||||||| | |||||||
gtaagtatttgattgatttgtgatggattgatttccccaatat-----acataatgggggttaag--------ggtgaattcaaatggttgcaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAGTTATCGTTCATTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTGT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G18530.1 (Glycine max), 3'ss of exon 4
gtaagtataaaattgaattatgatggcttgatttccccaatttcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||||   ||||| || |||||| |||||||||||||| |     | ||  |||||||||||        | ||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||||| |||||||||| |||||| ||||||||||||||||||||||||||||||||| | ||||| |
gtaagtatttgattgatttgtgatggattgatttccccaatat-----acataatgggggttaag--------ggtgaattcaaatggttgcaacagGTGTTTGAGAAACTTGGACCAAGCTTATACGATTTTCTTCGGAAAAACAGTTATCGTTCATTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTAT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G24740.2 (Arabidopsis thaliana), 3'ss of exon 4
gtaagtataaaattgaatt-atgatggct-tgatttccccaatttcacgaatattttgggggttaagactttgtggatgaa-ttcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
||||||||  | |  | ||  ||||| || |||||| |||   ||   ||| ||  | |||||| | | |||||||||||| || |||||||| | |||||| ||||||||||||||| | || |||||||||||||| |||||||||||||||||||| |||||||||||||||||||||||||||||| | ||||| |
gtaagtatttagtcaattttgtgatgtctatgattttccccggtttgggaa-atagttggggttga-attttgtggatgaacttaaaatggttgctacagGTATTTGAGAAGCTTGGATCGAGTTTATACGATTTTCTTCGGAAAAACAATTATCGCTCCTTTCCCATTGATCTTGTCCGTGAGATTGGCTGGCAACTCT

upper sequence: Vv17s0000g09500.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S100_121V6.1 (Physcomitrella patens), 3'ss of exon 7
--gtaagtataaaattgaattatgatggc-ttgatttccccaatttcacgaatattttgggggttaagactttg-tggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
   ||  || |     |   ||| ||    |  | | ||    | |      |   ||    || | |    || | | | ||      |  | |   ||||| | ||| |  || ||||| |||||||||||||| || || ||||||||||||||  ||||| |    ||||| || || ||  ||||| | || ||||
ttctagatacagttcaggtgtataattatgtccaatcccttgttcttggccttgcatttatagtaatggtcatgattgttcaaactgggtaatcttg-cagGTTTGTGAAAGACTAGGACCGAGCTTATACGATTTCCTTCGAAAAAACAATTATCGACCATTTTCTGCAGATCTCGTTCGCGACTTTGGCCGCCAGCTGT

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|30322713|gb|CD005975.1|CD005975
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
EST: gi|32272087|gb|CD721246.1|CD721246
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
EST: gi|32268109|gb|CD717268.1|CD717268
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
EST: gi|30324825|gb|CD008087.1|CD008087
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
EST: gi|32268970|gb|CD718129.1|CD718129
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
EST: gi|32248754|gb|CD714573.1|CD714573
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
EST: gi|71856051|gb|DT005106.1|DT005106
EST:     TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATT                         GTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT
genomic: TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAACCATATCTGTATTgtaagtataa ... gtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacgaatattttgggggttaagactttgtggatgaattcaaatggtttcaacagGTGTTTGAGAAGCTTGGACCAAGCTTATACGATTTTCTACGGAAAAACAATTATCGCTCATTTCCCATTGATCTTGTCCGTGAGATTGGCAGACAACTGT
     aatatttt  TA-rich tract