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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatctgttcattttcagcttggatgtgctccttgttcaaagtataatatggataataattgttggtctactttttttgctctttggctccttt...

Basic information

species Vitis vinifera
transcript Vv17s0000g01550.t01
intron # 21
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 21
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatc-tgttcattt--tcagcttggatgtgctccttgttcaaagtataatatggataataattgttggtctactttttttgctctttggctccttt
||||||||| ||| |||||||||| || ||||||||||||||| ||||||||||||| || |||||||||||| | || ||||| || ||  |||| |||||    || |  || | | ||   ||  |   || |||   |   | | | | |  |||    ||| || | | |   ||||  || |    ||   ||   |
TGATATTGGAGCCTTGGAAAATGTAAAAGACACATTGAAGGAGCTGGTGATGCTTCCTCTGCAAAGGCCTGAATTGTTCTGCAAAGGACAGCTAACGAAGgtagagacgttatgatgaattatccatgtctcatatgcgggtg--taagattgttctatct-caattataggttgcgcacttgattagagtgttttgtcaagt

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 12
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatc-tgttcattttcagcttggatgtgctccttgttcaaagtataata--tggataataattgttggtctacttttt--ttgctctttggctccttt
||||||||| ||| |||| ||||| ||||||||||| |||||| |||||||||| ||  ||||||| |||||| | || ||||| |||||  |||| |||||     |||  ||   | ||     |   ||  | || ||     | || | | |  |   |   ||  || |||  ||  | |  ||| | |||  ||     
TGATATTGGAGCCTTGGAGAATGTAAAGGACACATTAAAGGAGCTGGTGATGCTCCCTTTACAAAGACCTGAATTGTTCTGCAAAGGGCAGCTAACAAAGgtagcatcataatgcctaattatgtttgaaatcggttcattacatgaggtgtcagagttttctttcaaccgtaggttgaccatatggttgatatttttct-----

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 17
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatctgttcattttcagcttggatgtgctccttgttcaaagtataatatggataataattgttggtctactttttttgctctttggctccttt---
||||||||| || || ||||| |||||||| ||||||||||||||||||||||||||  |||| ||||||||||||||||||||||||||||||||||||||||   ||| |  |    ||  | ||||||  |    ||    ||  |  |||    | |||     ||| | |  ||||  |   |||    |        
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttt---catttcctttacttgtgtttggattaggaatttcgggaatttgaaatgcctagaatttaaattgctttgattttaatttccttcatttttcaaatg

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA17G13850.1 (Glycine max), 5'ss of exon 19
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatctgttcattttcagcttggatgtgctccttgtt--caaagtataatatggataataattgt--tggtctact-ttttttgctctt-tggctccttt
||||||||| || || ||||| |||||||| ||||||||||||||||||||||||||  |||| |||||||| |||||||||||||| |||||||||||||||| |||     ||| | | ||| ||| |  |  |  || ||  || | | |  |     |  |  || |    ||  ||| ||| ||| | |  | | ||  ||
TGATATTGGAGCTCTTGAAAAGGTCAAGGATACATTGAAGGAGTTGGTGATGCTTCCTTTACAGAGGCCTGAGCTTTTTTGCAAGGGACAATTAACCAAGgttt-cac-----ttcctctacagattgaaatttgtttttattaacagatttttttgcttctgctctttatgccagttgactatttgttgatttgatagatcgatt

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA06G17940.1 (Glycine max), 5'ss of exon 21
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatctgttcattttcagcttggatgtgctccttgt-tcaaagtataa-tatggataataattgttggtctactttttttgctctttggctccttt
||||||||| || || |||||||||||||| ||||||||||| ||||| ||||||||  |||||||||| || || ||||| || ||||||||||||||||||| | |  | | | |        |    |||    |  |  |     | | | ||| || |  |   ||| |  | | || ||   | |||   |||   
TGATATTGGAGCTCTTGAAAATGTCAAGGATACATTGAAGGAATTGGTTATGCTTCCTTTACAAAGGCCAGAGCTATTTTGTAAAGGGCAATTAACCAAGgtttgctctacagattaaaacacattctattgtttaacacgcattcctttgtgactattgacaggagaagttagattccattgttgtttgtttccttccc--

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: GLYMA04G37050.1 (Glycine max), 5'ss of exon 4
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcac-atctgttcattttcagcttgg-atgtgctccttgttcaaagtataatatggataataattgttgg--tctactttttttgctctttggctccttt
||||||||| || || |||||||||||||| || |||||||| ||||| ||||||||  |||| ||||| || || |||||||| ||||||||||||||||||| |   |    || |    ||   |   || |        |||   || |  ||| || | ||   ||| |  || | | || |||||  |          
TGATATTGGAGCTCTTGAAAATGTCAAGGATACTTTGAAGGAATTGGTTATGCTTCCTTTACAGAGGCCCGAGCTATTTTGCAAAGGGCAATTAACCAAGgtttactttacagattgaaacacattctatcatttaacatgcattctctgtgtc-tattgacagtaggagttagattccattgttgttgctgataaaaaaa---

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 5'ss of exon 20
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacatctgttcattttcagctt--ggatgtgctccttgt-tcaaagtataatatggataataattgttggtctactttttttgctctttggctccttt
||| |||||||| || || |||||||| ||||| || |||||  |||| ||||||||  | ||| ||||||||||||| ||||||||||||||||| |||||  |    | | | |   ||  | ||  |||  | | | |  | |   | |||    ||  |   ||||| ||    |  | |   |  | ||   |   | 
TGACATTGGGGCACTTGAGAATGTCAAAGACACTTTAAAGGAACTGGTTATGCTTCCTTTTCAATGGCCTGAACTTTTCTGCAAGGGGCAATTAACAAAGgtggttgtct-tatccgcatttggttttaggaaattcccatattgtttcactatgtcctgcctcg-aattgatgacagatctgtgaaggaccttttatttgt-

upper sequence: Vv17s0000g01550.t01 (Vitis vinifera), 5'ss of exon 21
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 5'ss of exon 20
TGATATTGGGGCCCTGGAAAATGTCAAGGACACATTGAAGGAGTTGGTGATGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgtt-ttcacatctgttcattttcagcttggatgtgctcct---tgttcaaagtataatatggataataattgttggtctactttttttgctctttggctccttt
||| |||||||| || || || ||||| || |  || |||||  |||| ||||||||  ||||| ||||||||||||| ||||||||| ||||||| |||||  ||| | ||| | |||| |      | |    | | |   | ||  | ||      | |  | | ||    | | ||           | ||   |     
TGACATTGGGGCACTTGAGAAAGTCAAAGATATCTTAAAGGAACTGGTTATGCTTCCTTTACAACGGCCTGAACTTTTCTGCAAGGGGGAATTAACAAAGgtggttctcttctctgcattatgtttcagaaaactcccataattttttgaggtcctgcctcgg-atttatcacagatgtatgaaggaaataccttttattt---

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|37186767|gb|CF606120.1|CF606120
EST:     TGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCTTGCAAGGGCATACTTCTATTTGGCCCCCCTGGAACAGGCAAGACAATG
genomic: TGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacat ... ccatgtgcagCCTTGCAAGGGCATACTTCTATTTGGCCCCCCTGGAACAGGCAAGACAATG
EST: gi|30255057|gb|CB971504.1|CB971504
EST:     GCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGGA-TCNAACCAAG                         ACTTGCAAGGGCATAACTTCTATTTGGCCCCCCTGG
genomic: GCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATT-AACCAAGgttttcacat ... ccatgtgcagCCTTGCAAGGGCATA-CTTCTATTTGGCCCCCCTGG
EST: gi|110720420|gb|EE096327.1|EE096327
EST:     TGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCTTGCAAGGGCATACTTCTATTTGGCCCCCCTGGAACAGGCAAGACAATG
genomic: TGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacat ... ccatgtgcagCCTTGCAAGGGCATACTTCTATTTGGCCCCCCTGGAACAGGCAAGACAATG
EST: gi|110711745|gb|EE088578.1|EE088578
EST:     TGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAG                         CCTTGCAAGGGCATACTTCTATTTGGCCCCCCTGGAACANGCAAGACAATG
genomic: TGCTTCCACTACAAAGGCCTGAACTTTTTTGCAAGGGGCAATTAACCAAGgttttcacat ... ccatgtgcagCCTTGCAAGGGCATACTTCTATTTGGCCCCCCTGGAACAGGCAAGACAATG