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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG

Basic information

species Vitis vinifera
transcript Vv00s0181g00220.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 3'ss of exon 6
gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
|||||| | |    | | |   |||||      ||   | | | | ||  | || | |  ||| |||       |||   |||| ||||||||||| ||||| ||||||||||||||| ||||||| || |||||||| ||||||||  ||||||| |||  |||  | || ||| | || |
gtaagattatttcctat-tcagcatttttcttctttttttcttttgtttgagttctaacatatatgttc-----tgtcccagATCCTTGGAAGTGGTATGTCTAATAAGATGTGGGATATTCTTGTCGAACATGCAAAGACTTGTGTCTTAAGTGGAAAATATTACATATATTATTCAGACG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g35470.3 (Oryza sativa), 3'ss of exon 6
gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattg-ttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
|||||  | |||| || ||||| | |      ||  |||   | || | |||||  |  | |  |  |||   ||  || ||||||||||| ||||| ||||||||||||||||||||    ||||| ||||||||||| ||||||||  ||||||| || |  ||||| || ||| ||  ||
gtaagt-tctacaatt-gttgttaat---aggttgtaattaatgtagtttaattgatgatcaaatacctcttttttcttttagATTCTTGGCAGTGGAATGTCAAATAAGATGTGGGAAAGCCTTGTTGAGCATGCAAAGACTTGTGTCTTAAGTGGAAAGCACTATGTATATTATGCTATTG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os04g36660.1 (Oryza sativa), 3'ss of exon 6
gtaag----aatgtacattttgttgtcat---ttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
|||||    | | | | | ||  |  | |   || |||||||   | | |  |   |||  |||  || | |   ||  ||  ||  |||||||||| |||  |||||||||||||||||||||   |||||| |||||||| || || |||||| | ||||| ||||  ||| | || ||  |    |
gtaagtcttattattcctctttgtaacttatattaagaattttgtttctttaaaactaaaatttggttttcttcttctgatattttcagATTCTTGGCAGTAACATGTCAAATAAGATGTGGGAAAGTCTTGTTGAGCATGCGAAGACATGTGTTTTGAGTGGCAAACACTATATATATTACTCAAGCG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G451882_T01 (Zea mays), 3'ss of exon 6
------------gtaagaatgtacattttgttgtcatt-tcagaatttgaatcc-gtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
            ||  |  |||  |||   ||   ||| | | | ||| | |    | | ||  | ||| |   ||||  |   |   |||  ||||| ||||||||||| ||||| || || ||||||||||  |||||||| |||||||| ||||||||  |||||||||||  |||  | |||||| ||||||
gtaagttcgtatgtgggtgtgt-tattaacttactattattatactttcatttttatgtgtttcagtttatgactattaatgctcttctgtgatagATACTTGGAAGTGGTATGTCCAACAAAATGTGGGATGCCCTTGTGGAACATGCAAAGACTTGTGTCTTAAGTGGGAAATATTACATATACTATTCTGATG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G113453_T01 (Zea mays), 3'ss of exon 6
gtaagaa-tgtacattttgttgtcattt--cagaatttgaatccgtctattgtaatttttatttatttgtctccaa--ttgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
|||||   | |      |||| |   ||   | | | ||| |     ||||     | |  |||    | |       || || |||||||| || ||||| ||||||||||||||||||||    ||||| ||||||||||| || |||||  ||||||| || | |||||| |||||| ||   |
gtaagttctatgatacctgtttttgcttactatattgtgatttatggtattccctatatggtttgacagcccttgttctttttatagATTCTGGGCAGTGGAATGTCAAATAAGATGTGGGACAGCCTTGTTGAGCATGCAAAGACATGTGTCTTAAGTGGAAAGCATTATGTATACTATGCTAGAG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G054109_T01 (Zea mays), 3'ss of exon 6
gtaagaatgtacattttgttgtcatttcagaatttg-aatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
       |      | || |  | | |    ||||    |   ||   | | ||||        ||||      || ||||||||||| || ||||| ||||||||||||||||||||    ||||| || |||||||| || |||||  ||||||| || | |||||| |||||| ||   |
------gtaagttctatgataccttattgtgatttatggtatttcctatatgatttgacaccccttgttct---tttttgtagATTCTGGGCAGTGGAATGTCAAATAAGATGTGGGACAGCCTTGTTGATCATGCAAAGACGTGTGTCTTAAGTGGAAAGCATTATGTATACTATGCTAGAG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G018837_T01 (Zea mays), 3'ss of exon 6
----gtaagaatgtaca-ttttgttgtcat-ttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
    ||  |  ||| || | || ||  | | |||  | | |   | | | | || |  ||  |  ||||   |       |||  ||||| ||||||||||| ||||| || || ||||||||    ||||||||||||||||| ||||||    ||||||| |||  |||  | |||||| ||||||
gtaagtttgtgtgtgcagtgttattaacttattcttactatactttcatgtgttttggttgctgattataaatgctattctgtgatagATACTTGGAAGTGGTATGTCCAACAAAATGTGGGAAACCCTTGTGGAGCATGCAAAGACTTGTACCTTAAGTGGAAAATATTACATATACTATTCTGATG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G06320.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------gtaagaatgtacattttg-ttgtcatttcagaat--ttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
                                                              |    || |  ||||   |||    |  | |||  ||  ||  ||| |  |   | |||  |||  | |      || |||||||||||||| || |||||||||||||||||||||||| ||||||| ||||||||||| ||||||||||| ||||| ||||||||||| |||||||||||||
gtaagaatctagatttttgtccatttaggattttaatgtcaattgaccaaatgttcaattctttttgatttgtatttgaattgatgatgtaaaattattttatatgtcaaaggatttatttggttaactatacttccttattgtagATTCTTGGGAGCGGCATGTCAAATAAGATGTGGGATATTCTTGTTGAGCATGCAAAGACTTGTGTTCTCAGTGGAAAACTTTATGTATACTATCCTGATG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G30990.2 (Glycine max), 3'ss of exon 4
--------------------------------------------gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
                                            |    ||||  || ||  || |  |||  | |||||||||  |    | ||||| || | |   |   ||   || |||||||||||||| ||||||||||||||||||||||||||| ||||||| ||||| ||||| ||||||||||| ||||| |||||||| || ||||||||||| |
gtaagaatccagatttttgtccatttaggattttaatgtcaattgatctaatgctcaattccttttggttt--gtatttgaatcgatgatatataattattttatggatacttc---ttattgtagATTCTTGGGAGTGGCATGTCAAATAAGATGTGGGATATTCTTGTTGAGCACGCAAAGACTTGTGTTCTCAGTGGAAAACTTTACGTATACTATCCTGAAG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G07330.1 (Glycine max), 3'ss of exon 5
------------------------------gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgt----aatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
                              | |||| | |  | |||| | | | ||    || | |||   |  | | |    |||||| |   |||      |   |  ||||||||||||| |||||||||||||| || |||||||||||||| || ||||||||||| ||||||||||| ||||| ||||| ||||| |||||||| ||||
gtaagaatctatagacactttttctcatgggaaagagtttcaagtttgatttgacttggtgatataaattttttaactatccaaaattttcacggattaactatc--ctcatgtagATTCTTGGGAGTGGCATGTCAAACAAAATGTGGGATGTTCTAGTTGAGCATGCAAAGACTTGTGTTCTTAGTGGAAAACTCTATGTATACTATCCCGATG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ34469 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
||||| |   | | || ||| |   |||    |||   ||  ||| |        | || || |||        ||  | ||||||||||||||||||||||||||||||||||||| |     ||||||||||| ||||| || || || || || || || ||||| || ||| | || |
gtaagtaatgaaagttagtttt---ttc----tttctctctctctgtcag----ctcatgtagttggt-----ctggcgcagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGAAGGAACAGTGGAGCATGCTAAAACGTGCGTCCTCAGCGGAAAGCTGTATGTCTATTATGCCGACG

upper sequence: Vv00s0181g00220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: EFJ05811 (Selaginella moellendorffii), 3'ss of exon 5
gtaagaatgtacattttgttgtcatttcagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
||||| |  |   |||| || ||  |      |||   ||  | | ||  |  |  | |   || ||||      |  | ||||||||||||||||||||||||||||||||||||| |     ||||||||||| ||||| || || || || || || || ||||| || ||| | || |
gtaagta-atgagtttttttctctctc-----tttctctctctttctttcagctcatgta-gttggtct------ggcgcagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGAAGGAACAGTGGAGCATGCTAAAACGTGCGTCCTCAGCGGAAAGCTGTATGTCTATTATGCCGACG

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|33402821|gb|CF208448.1|CF208448
EST:     TTGAGGACTTCCTACGACTTGTAGTTAGAGATTCACAAAGATTACGGAAT                         ATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCAT
genomic: TTGAGGACTTCCTACGACTTGTAGTTAGAGATTCACAAAGATTACGGAATgtaagaatgt ... attgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaatttgaatccgtctattgtaatttttatttatttgtctccaattgttgtagATTCTTGGAAGTGGCATGTCAAATAAGATGTGGGATGTTCTTGTGGAGCATGCAAAAACTTGTGTTCTAAGTGGGAAACTTTATGTTTACTATCCTGATG
               tctattgtaattttta  TA-rich tract