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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattattttcatacacattcttatacctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA

Basic information

species Vitis vinifera
transcript Vv14s0060g01290.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g14270.2 (Oryza sativa), 3'ss of exon 2
gtattattttcatacacattcttatacctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
                                  |   | ||    ||         | |||  |||  | | |  || |  || | |  | |  | |  ||| | |  ||||||||||||   |||||||||||| ||||| ||||| ||||| |||||||| |||||||||||||| ||||| ||  | ||  | || ||  |||| ||
----------------------------------gtaaattggaagatcaatacacctcattcagacactaacagatg-atttttactgaatt--atttttcttgttgcagGTATCCAAACCTCTGAGGACTACAGGTTCTACGCTATTTCAGCGGAGTACCCAGAATTCAGCAACAAGGATAAAACCCTGGTGCTGCAGTTCTCTGTAAA

upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G074687_T01 (Zea mays), 3'ss of exon 2
gtattattttcatacacattcttatacctatttggggcaatgtttcattctctttattaatttggactttgaaatgt---gtaacttgatttgact--tcaatgg---tctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
                                                        ||||||   |   | | | |    || | || | || | |  | |||     ||  | |  |||||| |||||    ||||||||||| |||||||| || |||||||| |||||||||||||||||||| ||||||||  | ||  | || ||  |||| ||
-------------------------------------------------------gttaattcaaaacgtcagaagaatggtgatttcagtttattagttaatacgtttcatgttgcagGTATTCAAACCTCCGAGGACTACAGGTTCTATGCCATTTCAGCTGAATACCCTGAATTCAGCAACAAGGATAAGACCCTGGTGCTGCAGTTCTCTGTGAA

upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G358059_T01 (Zea mays), 3'ss of exon 2
gtattattttcatacacattcttatacctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
                                    | ||  || ||    | | |  |  ||||   ||  | | | |   |   ||   |  ||    ||| | |  |||||| |||||    ||||| ||||| |||||||| || ||||| || |||||||| ||||||||||| ||||||||  | ||  | || ||  |||| ||
------------------------------------gtaa-attccaaaa-catcagaagattggtggtttcagtttatttatgagttactcaacacgtttcttgttgcagGTATTCAAACCTCCGAGGATTACAGGTTCTATGCCATTTCAGCCGAATACCCTGAGTTCAGCAACAAGGATAAGACCCTGGTGCTGCAGTTCTCTGTGAA

upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G28890.1 (Glycine max), 3'ss of exon 2
-------gtattattttcatacacattcttatac----ctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
         |||  | |  |  | | ||   ||     |||||   |    |  |   | || ||  ||||  | ||  || | || |||   ||| ||  |  |  ||        |  |||||| ||||| |||||||| ||||||||||||||||| ||||||||||||||||||||||||||||| | ||||||| |||| || |||||| |||||||
gtaaactaaattgctatgttgaatagtcgggtattatactattattgttgctcatgtttacttttgtttaaaattgatattaagatatgt---ttggttgaatgttgatatctc---tgcagGTATTCAAACCAGTGAGGATTACAGATTCTATGCTATTTCAGCTGAGTACCCTGAATTCAGCAACAAGGGTAAGACACTAGTCTTTCAATTTTCTGTTAA

upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G23080.2 (Glycine max), 3'ss of exon 2
-------gtattattttcatacacattcttatacctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
         |||  | |  |  ||| |||| ||    ||   |   ||||||  || |   ||  ||||   | |  || |||| |   ||    ||| |    || | |  ||  |||||| ||||| |||||||| ||||||||||| ||||| |||||| |||||||||||||||||||||| ||||||||| |||| ||||||||| |||| ||
gtaaactaaattgctatattgaacagtcttgtattatttcttgctcatgtttatttttggctaa-aattgatattaagatatgtttgtttttggctgaatgt--tgatatctatgcagGTATTCAAACCAGTGAGGATTACAGATTCTACGCTATTTCAGCTCAGTACCCTGAATTCAGCAACAAGGATAAGACACTAGTCTTCCAATTTTCTGTCAA

upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G56340.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattattttcatacacattcttatacctatttggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
                                       |||||||||   |  |  | || | || |     ||   ||   | || | | ||  ||        |  |||||||||||| || ||||||||||||||||| |||||||||||||| | |||||| || |||||||| |||||||| ||||| ||||||||  |||| ||
-------------------------------------gtatgtttcatgaccagtgatgatgttgattcactgattcatattctcatgtcaatt--ataactctcttgcagGTATCCAAACTAGCGAGGACTACAGATTCTACGCTATATCAGCTGAATTCCCTGAGTTTAGCAACAAGGATAAGACCTTAGTCTTCCAATTCTCTGTCAA

upper sequence: Vv14s0060g01290.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G09210.1 (Arabidopsis thaliana), 3'ss of exon 2
gtattattttcatacacattcttatacctatt-tggggcaatgtttcattctctttattaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
       | | || ||   |      |  ||    |    ||  || ||| | ||||  |  |||  ||    |||| ||    || |   | | | || ||||||    ||||||||| || ||||| |||||||||||||| || || |||||||||| |||||||||||| ||||| || ||||| ||||| ||||||||  | || ||
------gtatgattcagccttcagagctaatcacagaatcattatttattgt-tttacaagcttgtgct----aatgcgt----tgttgcaattgccattgtctgg---cagGTATCCAGACCAGTGAAGACTACAGATTCTACGCCATTTCAGCTGAGTTCCCTGAATTCAGTAACAAGGACAAGACCTTAGTCTTCCAATTCTCAGTCAA

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|37188532|gb|CF607881.1|CF607881
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110732858|gb|EE108510.1|EE108510
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110372400|gb|EC936562.1|EC936562
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110700083|gb|EE077719.1|EE077719
EST:     AGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: AGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110687770|gb|EE065562.1|EE065562
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110699525|gb|EE076601.1|EE076601
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110732288|gb|EE107443.1|EE107443
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|29781779|gb|CB346544.2|CB346544
EST:     CGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: CGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|33401998|gb|CF207625.1|CF207625
EST:     CGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: CGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|30295872|gb|CB972666.1|CB972666
EST:     GGAATGGAACTACACCTTTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTTTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110729565|gb|EE105649.1|EE105649
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110357396|gb|EC920905.1|EC920905
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110702773|gb|EE079035.1|EE079035
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110688081|gb|EE066225.1|EE066225
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|110727891|gb|EE105170.1|EE105170
EST:     GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: GGAATGGAACTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
EST: gi|30295943|gb|CB972737.1|CB972737
EST:     CTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAG                         GTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC
genomic: CTACACCTCTGGTAAATGGCATGGAGACCCGAATGATAAAGgtattatttt ... ctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatttggactttgaaatgtgtaacttgatttgacttcaatggtctggatatagGTATCCAAACAAGTGAGGACTACAGATTCTATGCTATATCAGCTGAGTACCCTGAATTCAGCAACAAAGATAAGACATTAGTTTTCCAATTTACTGTTAA
           tttgaaat  TA-rich tract