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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggactttatttttttaacgaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttcctttaatagaataaggtattgtgagtggcacaggtgataaattgctgcaacaaaagcagttgtagtaatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA

Basic information

species Vitis vinifera
transcript Vv06s0004g02050.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os06g08790.1 (Oryza sativa), 3'ss of exon 9
gtaggactttatttttttaacgaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttcctttaatagaataaggtattgtgagtggcacaggtgataaattgctgcaacaaaagcagttgtag-taatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA
                                                                                               | ||   |  |    |  ||    |   |   || ||| |       | || |  || ||   |    || ||  |||| ||||| || || ||||||||||| || |||||  | || ||||||||||| || |||||||| ||| | || |||||||| || ||||||||||  ||
-----------------------------------------------------------------------------------------------gtacctatacttttgt-ttgttttacgtgtgattttagatggccttttaattactctttggc-tgttactgaacgcagGTATAGCGAACACAATGGATCTTCCTGAAAAGTTATTGCCTCGTATTTCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGCCCATATAATTATCGGCA

upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G168249_T01 (Zea mays), 3'ss of exon 9
gtaggactttatttttttaacgaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttcctttaatagaataaggtattgtgagtggcacaggtgataaattgctgcaacaaaagcagttgtagtaatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA
                                                                                            ||  |  |  |  |       |    |   | |  |     | |  ||    |  | |||| ||   |   |   | |||| |||||||| || |||||||||||||| |||||  | || ||||| ||||| || |||||||| ||| | || |||||||| || || ||||||  |||
--------------------------------------------------------------------------------------------gtaactaaactattcttccattttgtccttacccttaccttttactcaccccttgt-ctgttttgcca---tggttgcagGTATAGCAAACACAATGGATCTTCCAGAAAAGTTATTGCCTCGTATATCAAGTCGGATGGGTATCCAACGACTGTGTTTTGGTCCATACAATTATAGACA

upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G03900.1 (Glycine max), 3'ss of exon 11
gtaggactttatttttttaacgaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttcctttaatagaataaggtattgtgagtggcacaggtgata-aattgctgcaaca-aaagcagttgtagtaatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA
||| ||   |   ||||| |      |||| || ||     |  | |||   |    |     |||| ||  | ||   |||  || |  ||     | |    |||  |||    |||    | ||  |||| | | | |||  | | |  |   | |  | | | |||||||||||||||||||| |||||||||||||||||||| ||||| ||||| |||||||||||||| || || |||||||| ||||| || ||||||||||| ||
gtaagataatgcatttttcaa-----ttattttttc-----agtattatgatctccca-----gttttctgaagtaatttaaaatagttggaaaacaagaatccatatgattataacaatttgatgcctttgt-gcattgcaa--aaacttattcttcagtactatcaattcagGGATAGCAAATACTATGGATCTTCCAGAGAAGTTACTTCCTCGTATATCAAGCCGAATGGGCATACAGAGGCTTTGCTTTGGCCCATATAATTATCAGCA

upper sequence: Vv06s0004g02050.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G41490.1 (Glycine max), 3'ss of exon 9
gtaggactttatttttttaacgaggtttatcttctcttgtgacaaatatagccatgtaatgttgtttcctttaatagaataaggtattgtgagtggcacaggtgata-aattgctgcaaca-aaagcagttgtagtaatacaatta-taatgctgtgttataaatcta---aattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA
||| ||   |    |||| |      |||| || ||     |  | |||   |    |     |||| |   | ||   |||  || || ||     | |    |||  |||    ||||   | ||  |||| | | | |||  | | ||  |    ||  ||| ||   |||||||||||||||||||| |||||||||||||||||||| ||||| ||||| |||||||||||||| || || |||||||| ||||| || ||||||||||| ||
gtaagataatgcacttttcaa-----ttattttttc-----agtattatgatctccca-----gtttgcagaagtaatttaaaatagtgggaaaacaagaatccatatgattataacaacttgatgcctttgt-gcattgcaaaaacttatttttcagtactaatgtaaccaattcagGGATAGCAAATACTATGGATCTTCCAGAGAAGTTACTTCCTCGTATATCAAGCCGAATGGGCATACAGAGGCTTTGCTTTGGCCCATATAATTATCAGCA

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|30129730|gb|CB915069.1|CB915069
EST:     CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
EST: gi|110702580|gb|EE081092.1|EE081092
EST:     CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
EST: gi|30126105|gb|CB911444.1|CB911444
EST:     GATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: GATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
EST: gi|30130177|gb|CB915516.1|CB915516
EST:     GATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: GATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
EST: gi|110362552|gb|EC926095.1|EC926095
EST:     CAACATTCTTGATTGGCCTATTAAGCCACATTCCAAATTGATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
EST: gi|110363917|gb|EC927549.1|EC927549
EST:     CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
EST: gi|33406095|gb|CF211722.1|CF211722
EST:     CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAG                         GGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA
genomic: CAACATTCTTGATTGGCCTACTAAGCCACATTCCAAATTGATCGTGATAGgtaggacttt ... ctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaaaagcagttgtagtaatacaattataatgctgtgttataaatctaaattcagGGATAGCAAATACCATGGATCTTCCAGAGAAGTTGCTTCCCCGTATTTCAAGCCGAATGGGTATTCAAAGGCTTTGTTTTGGGCCCTATAATTATCAACA
                                           atctaaa  putative branch site (score: 3)
          ttgtagtaatacaatt  TA-rich tract