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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA

Basic information

species Vitis vinifera
transcript Vv04s0008g04690.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g11050.1 (Oryza sativa), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctg-ctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                  |||  | |      |||   |   |        ||  |  | | ||   |||| ||  | ||   | |  | | | ||| || || | |  | | |  |     || | |   || | ||  |    ||||||||||| ||||| ||||| || || |||||||||||||| |||   |||||||||||| | ||||| ||||||||||| || ||||| |||||||| ||||||
-----------------------------------------------------------------gtaaactgagcaaaaataccctgagttcttctatta--tagtgaaag---cattattggcttgcaatctgaactatagttctacatatgcactctgttgtcagtgtaggcttaattgtttggttaacatattacagGGAACATGCACCATCCATTATTTTCATGGATGAAATAGACTCCATTGGATCTGCTAGGATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTCCAGCGA

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g39870.1 (Oryza sativa), 3'ss of exon 4
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                | |   |||||    | || | | | |    | ||   ||  |    ||||      | |  |    | |  ||     || |  ||| |||  | |||| |     |  |   ||      | |||| |    | ||          |||| |||||||| ||||| || ||||| ||||||||||| |||   |||||||||||| ||||| | || ||| ||||   |||||||||||| || || || 
------------------------------------------------gtaaacattttctgttgatgatacattgaaatttaccatatattcaatggg-----atctgaaaatccttcattgggaaggatgcttgcatt--gctttacactattcagtaggctgacgtctttggtttgaattttg----------acagAGAGCATGCACCATCCATAATCTTTATGGATGAAATAGACTCCATTGGATCTGCTAGAATGCAGTCAGGATCTGGGGGTGGTGATAGTGAGGTTCAACGC

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G137528_T01 (Zea mays), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgc-tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                              |  ||   | ||   ||||   |   |     ||         | | |||| | |      |||| ||  ||  ||||   | | || |||| | |  ||||| |||||| ||||| ||||| || || || |||||||||||||||  ||| ||||||||| ||||||| ||||||||||| || |||||||||||||||||||| 
---------------------------------------------------------------------------------------------acaaggccttagt---gagttgaagcataactttgcacatgcacaatctgttatta-----tctttcattgtgggcttagtttgttttatctggttcacttattgcagGGAACATGCGCCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGATAGTGAAGTGCAGCGT

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G107362_T04 (Zea mays), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgttta-gagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgc-tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                                   || ||||||  ||||   |   |  |  ||  |  |   ||| |||| | |   |   ||| ||  ||  ||||  || | || || | | |  ||||| |||||| ||||| ||||| || || || |||||||||||||||  ||| ||||||||| ||||||| ||||||||||| || ||||| |||||||| ||||| 
-------------------------------------------------------------------------------------------------attagttgtttgtgagttgaagcataattttgcatattcatattctgttattagctt---tttcattgtgggctta--gtttgttatcgggttcacttattgcagGGAACATGCACCATCCATTATATTTATGGATGAAATTGACTCTATCGGATCTGCTAGAATGGAGTCTGGAACTGGCAACGGTGACAGTGAAGTTCAGCGT

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G00420.1 (Glycine max), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttag--agtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                                    || | |||      | |  |||  |   |  ||||||        |    || |    || ||| |     ||||  |        ||   |||  | ||||||| |||||||||||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||| ||| || ||||||||||| || ||||| 
----------------------------------------------------------------------------------------------------aactttttgattcattaattttcatgtttatgttatttggagccttgcctaaccattattatatatgaatattatcatggaacacttgt--cttcttcacagGGAACATGCTCCATCAATTATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGGATGGAATCTGGAAGTGGCAACGGTGATAGTGAGGTACAGCGT

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G24000.1 (Glycine max), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                               ||  ||| | ||| || |||  |  ||||| ||   | | ||   |||  |  || |    || ||| |     ||||  |        ||   |||  |  |||||| |||||||||||||| ||||||||||| |||||||||||||||||||||||||| ||||||||||||| ||| |||||||||||||| || ||||| 
----------------------------------------------------------------------------------------------ttgcttaacttttt-gattcat-taattttcatgttatttggagacttgcct--aaccattattatatatgaatattattatggaacacttgt--cttcttcccagGGAACATGCTCCATCAATTATCTTCATGGACGAAATTGACAGTATTGGATCTGCTCGGATGGAATCTGGAAGTGGCAATGGTGATAGTGAGGTACAGCGT

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G19990.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                       ||    ||  |     |||   |||   ||  ||     | ||| |    |||  |||  ||||   | ||  |  | |  ||||      |   | |   | |||    |||||||||||| |||||||||||||||||||||||||| || |||||||| |||||||| ||||||||||||| |||||||||||| ||||| ||||| || 
--------------------------------------------------------------------------------------cacagtgccaagtctcatgtaaggag---caaattacaaataggtgagatgattc-gttgaaaatactctttccagttgg--cttaca----ccggtttatggtttt----cagGGAGCATGCACCATCAATCATCTTCATGGATGAAATCGATAGTATTGGGTCTGCTCGTATGGAATCTGGAAGTGGAAATGGTGACAGTGAGGTGCAACGG

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G20000.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                                  |||||     |     |||   ||   |    | ||||   |      ||  | | ||   || |||  | || | ||  ||     |||  |   || |||||||||||| |||||||||||||||||||||||||| || ||||| || |||||||| ||||||||||| | |||||||||||| ||||| |||||  | 
--------------------------------------------------------------------------------------------------gtaatgagcaaagtatacaccattaatcatcttcattgtgctgaaaaatacttattccagctagcttacctttctagtacctctg--gcttatggttttcagGGAGCATGCACCATCAATCATCTTCATGGATGAAATCGATAGTATCGGGTCTGCTCGTATGGAATCTGGTAGTGGAAATGGTGACAGTGAGGTGCAAAGG

upper sequence: Vv04s0008g04690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S245_17V6.1 (Physcomitrella patens), 3'ss of exon 5
gtttgtttaatatctttagtggaaaccatgacttgtgatacacctagaggatttatttttcactcataagataatattttatatgttacctctcctgggtaattgtttagagtcacatttttttcctgggttattgaattttgttttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                                                                                   |   |  | |  | | |     |  |  |      | | | |||||       || ||  | | ||       |   || ||  |      ||   || | |   | |       ||||| ||||| ||||||||||||||||||||||||||||| ||||||||||| |||||  |||| ||||| | ||| ||||| ||||||||||| ||||| 
-----------------------------------------------------------------------------------taagatgtgtttttgattgccatcaacggaacttgtctctacctgga------aacttcatgtcaagaacgtataagatgttaac----aagttatttttgtatggtt-------agGGAACATGCACCATCAATCATCTTCATGGATGAAATTGATAGTATTGGATCAGCTCGTGTGGAGTCTGGGAATGGCAATGGAGATAGTGAAGTTCAGCGG

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|161719441|gb|FC067675.1|FC067675
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110693738|gb|EE070234.1|EE070234
EST:     TGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110369927|gb|EC934100.1|EC934100
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110393851|gb|EC959383.1|EC959383
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110716592|gb|EE091708.1|EE091708
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|37188120|gb|CF607471.1|CF607471
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCA
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCA
EST: gi|30251430|gb|CB969163.1|CB969163
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110413978|gb|EC979798.1|EC979798
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110403181|gb|EC964466.1|EC964466
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|349826120|gb|FQ415925.1|FQ415925
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|30302866|gb|CB979660.1|CB979660
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|110686251|gb|EE063682.1|EE063682
EST:     TTATTGG-GAAGGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGGTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: ATATTGGTGAA-GGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
EST: gi|30302923|gb|CB979717.1|CB979717
EST:     TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAG                         GGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC
genomic: TATATTGGTGAAGGGTCTCGAATGGTTAGAGAACTGTTTGTTATGGCAAGgtttgtttaa ... tttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaatctcccttttatcttgtccttatggtctcttctctgctgctttattacagGGAGCATGCTCCATCAATCATCTTCATGGATGAAATTGACAGTATTGGATCTGCTCGAATGGAATCTGGAACTGGAAATGGTGATAGTGAAGTGCAGCGA
                              tctcttctctgctgct  CT-rich tract
           ttttatctt  TA-rich tract