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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaatagatcttagatgttaacattgctatttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAG

Basic information

species Vitis vinifera
transcript Vv09s0002g01800.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g01800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os07g22720.2 (Oryza sativa), 3'ss of exon 14
gtaagtaatagatct-tagatgttaacattgctatttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAG
||||||  |        | || ||   | |    |||    |  | |  | |||     | || ||||   ||          || ||| |||||||| ||||| |||||||||||||| ||||| ||  ||||||| ||||| || || |||| |
gtaagttctgaccaggcatatcttgggactaaagttttggcaagaaaggagataa----tgaaaatttcatttcgc-------atgcagATACCACAACGTGAACATCAATGTTGCTGTACAGACTGAGCATGGACTGTTTGTTCCAGTAATCAGG

upper sequence: Vv09s0002g01800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os06g01630.5 (Oryza sativa), 3'ss of exon 15
gtaagtaatagatcttagat-gttaacattgctat-ttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAG
|||||| ||   |  | |||  || | | ||  || || | |||  ||  || ||   | |  |  |  | | | |     || || ||| |||||||||||||| |||||||||||||| || || ||  ||||  | ||||| ||||| || | |
gtaagttatgagtaattgatcattgagactgggatgttcactac--tactacttatgatgt-gatgtgctacatat--aatctcatgcagATACCACAATGTGAACATCAATGTTGCTGTACAAACTGAGGATGGCTTGTTTGTTCCCGTAATAAGG

upper sequence: Vv09s0002g01800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA16G00590.1 (Glycine max), 3'ss of exon 14
gtaagtaatagatcttagatgttaacattgctatttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAG
||||||      | ||  |||| |  ||||| ||  ||||     ||||| |  | |  |||||||| |   |||     |  | |||||| || ||||||||||| ||||||||||||||||| |||||||| |||||||| || ||  ||| |
gtaagtctacattttttaatgt-agtattgccatcaaatttgtgaatcactt-taattgtaacatttgttaatttcatttttgtgcagGTATCATAATGTGAATATTAATGTTGCTGTGCAGACAGATAATGGGCTCTTTGTTCCAGTTGTCAGG

upper sequence: Vv09s0002g01800.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G03930.2 (Glycine max), 3'ss of exon 14
gtaagtaatagatcttagatgttaacattgctatttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAG
|||||| |   || ||  |||| |  ||||| ||  ||||     ||||  |  | |  ||||||||||  |||||    |  | ||||||  | ||||||||||| ||||||||||||||||| ||||| || |||||||| || ||||||| |
gtaagtcaacaatttttaatgt-agtattgccatcaaatttgtgaatcattt-taattgtaacattttttattttgtttttg-tgcagGTATAATAATGTGAATATTAATGTTGCTGTGCAGACTGATAACGGGCTCTTTGTTCCAGTCATCAGG

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|110407843|gb|EC973460.1|EC973460
EST:     CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCA                         GTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
genomic: CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCAgtaagtaata ... actaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
EST: gi|33405959|gb|CF211586.1|CF211586
EST:     CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCA                         GTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
genomic: CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCAgtaagtaata ... actaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
EST: gi|161714484|gb|FC064459.1|FC064459
EST:     CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCA                         GTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
genomic: CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCAgtaagtaata ... actaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
EST: gi|32250355|gb|CD716174.1|CD716174
EST:     CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCA                         GTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
genomic: CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCAgtaagtaata ... actaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
EST: gi|22009599|gb|BQ794633.1|BQ794633
EST:     CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCA                         GTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
genomic: CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCAgtaagtaata ... actaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
EST: gi|30132039|gb|CB917378.1|CB917378
EST:     CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCA                         GTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT
genomic: CGAAAAGTTCCTCAATGCAATAGTTCATGGACCAATGACTATATTCGTCAgtaagtaata ... actaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaattaccatatcacatacactcttaacatttttctttttgggactaatccagGTACCACAATGTGAATATCAATGTTGCTGTGCAGACGGATAATGGACTCTTTGTCCCCGTCATCAAG
                                            gactaat  putative branch site (score: 2)
                         ttaacatttttctttt  TA-rich tract