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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtttttctcttttctttttatatactagttatttcttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT

Basic information

species Vitis vinifera
transcript Vv09s0054g00370.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G128914_T01 (Zea mays), 3'ss of exon 12
--------------gttagtttttctcttttctttttatatactagttatttc----ttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
               ||  |||||  || |||   | ||| |    || |  |      | | | |  ||| ||| || | |   || |||    |||| ||||||||||| ||||| |||||||| ||||| || ||||| |||||||||||  | ||||| ||||| || || || || |  ||||||||||| |
gtagtatggcacccctttattttttcctcttccaataataaaaatcttgtaccaaaccatcaattctgaatgttattttcctactaagcat----agGACATGAGTGTGGGCACATCGTGGAACATCTTGAGACCGGAGACTGTTGAATCACTTATGTACCTATGGCGCTTGACGGGGAATACAACATACCAAGATT

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G130889_T01 (Zea mays), 3'ss of exon 13
--------gttagtttttctcttttctttttatatactagttatttcttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
           |   ||| | ||| || |||  ||| ||   || |  |  |    |||     | ||||  || |      || |||| ||| ||||||| || || |||||||| ||||| || ||||| |||||||||||| | ||||| ||||| || || || || || ||||||||||| |
gtagtatgacaaccctttatttttcctctttcaataataaaaatcttgtcca--aacca--tcaatttcctactga-----ctatagGACATGGGTGTGGGCACGTCGTGGAACATCTTGAGACCGGAGACTGTTGAATCACTGATGTACCTGTGGCGCTTGACGGGGAATAAAACATACCAAGATT

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G23730.1 (Glycine max), 3'ss of exon 12
gttagtttttctcttttctttttatatactagttatttcttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
       ||  |  ||  ||| | | | | |  || ||     | ||    |||| |     || |   |   ||| |||| ||||||||||||||||||||||||||| ||||||| ||||| ||||| || || |||||||| |||||| ||||||||||||| ||||||||||| |
------gttagttattagtttatttgtgccatgtaatttgaaaattgtgtgatctcaaacttatttttgaatatta-agGACATGAGTGTGGGTACATCATGGAACATACTGAGGCCAGAGACAGTTGAGTCCCTCTTTTACCTTTGGCGTCTAACTGGCAACAAAACATACCAAGAAT

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G02290.1 (Glycine max), 3'ss of exon 11
gttagtttttctcttttctttttatatactagttatttcttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
       ||  |  ||  ||| | | | ||    | ||     | ||   ||||| |  |  || |   |  |||| |||| ||||||||||||||||||||||||||| ||||||| ||||| ||||| || || |||||||| |||||| ||||||||||||| || |||||||| |
------gttagttattagtttatttgtgctgtgcaatttgaaaattgtgtaatctgaaatttatttttgaacttta-agGACATGAGTGTGGGTACATCATGGAACATACTGAGGCCAGAGACAGTTGAGTCCCTCTTTTACCTTTGGCGTCTAACTGGCAACAAAACGTACCAAGAAT

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 12
----gttagt--ttttctcttttctttttatatactagttatttcttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
    || | |  ||||  |   ||| ||| |||  |||||  ||  || |   |  |  | ||    |||     |   || ||||| |||||||| || ||||| |||||||| || || || || || |||||||||||||||||||||||||| |||||||| ||||||||||| |||||||
gttggtaaatactttttgcgcatctgtttgtatgttagttggttggtt-atgtcgtatccataagcacat----gattgtttcagGACATGAGTGTTGGCACATCTTGGAACATTTTAAGACCAGAAACCGTTGAATCACTGTTTTACCTCTGGCGATTAACTGGGAACAAGACATATCAAGAGT

upper sequence: Vv09s0054g00370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT3G21160.1 (Arabidopsis thaliana), 3'ss of exon 12
gttagtttttctcttttctttttatatactagttatttcttttactgcccaatcttacttccatctaaaacatt-tacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
||  ||  ||  | | |||||||  | ||   || ||| |||||      | |  |  ||   | || |  ||  | ||||| |||||||| || || || |||||||| ||||| || || || || ||||||||||||||||||||||| |||||||| ||||||||||| |||||||
gtatgtcatttgcctgtcttttt-caaacacattgtttattttatgcgttatttattgtttagtatacatgatgattcagGACATGAGTGTTGGAACGTCGTGGAACATCTTGAGACCAGAAACTGTCGAATCACTGTTTTACCTCTGGCGGTTAACTGGAAACAAGACATATCAAGAGT

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|33402283|gb|CF207910.1|CF207910
EST:     CAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG                         GATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAA
genomic: CAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAGgttagttttt ... acatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAA
EST: gi|71863682|gb|DT012737.1|DT012737
EST:     CAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAG                         GATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAA
genomic: CAACACCAACAAAATTGGCTGGAGAGAACTATTTCTTCCACTCTGGGCAGgttagttttt ... acatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatactagttatttcttttactgcccaatcttacttccatctaaaacatttacagGATATGAGTGTGGGTACATCATGGAACATATTGAGGCCCGAGACGGTTGAATCACTGTTTTACCTCTGGCGTTTAACTGGCAACAAGACATACCAAGAGT
                                      atctaaa  putative branch site (score: 3)
     tagttatttctttta  TA-rich tract