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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag

Basic information

species Vitis vinifera
transcript Vv01s0011g04180.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os08g27040.1 (Oryza sativa), 5'ss of exon 5
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagatt---gttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 || ||||| || || || || || |||||||||||||| |||| |||||| || ||||| ||||| ||||||||||||||||||||| |||| | |   ||   |||    |     | | | || | || |  | |   ||  ||   || | || | | |||| ||   ||     |||  | |  |  ||||                               
TTCGGTACTTATAACTGCTGTGATTACTGATGCAATTAAGGATGGTGTTGGTCGTCCTCGCCCAGATTTCTTTTGGCGTTGTTTCCCTGATGGAATACCTgtaatctccttgtg----ctagtgtcctgatctcagatattaaacttcatgtagtctgcaggttatattgaagtaacaaatcgtttcatttttcag-------------------------------

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os01g49820.2 (Oryza sativa), 5'ss of exon 4
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 || || || |||||||| || ||||||||||| ||||||||||  ||||| ||||| |||||||| ||||||||||| ||||| ||| | ||   |   ||    |      |   |||| |   ||    | |   |   |  || | |    | |  |   || |||      ||| ||| | ||    |     ||  ||||  |   ||||||   |||
TTCAGTTCTTATCACGGCGGTAATAACTGATGCCATTAAAGATGGGGTTGGTCGACCGCGTCCAGATTTCTTTTGGCGCTGTTTTCCTGACGGAGTACCTgtaaatttctagctc--tcaattggattc---tctaagcatgattttatcggagccggcct---ttgttgc-----atctgtcatgtatgtggaacttatggattttct---tggattg--cag

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os08g27030.2 (Oryza sativa), 5'ss of exon 4
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 || || || || || || || || ||||||||||||||  ||| |||||| || || || ||||| ||||||||||||||||||||| |||| ||    ||    ||    ||  |      ||  | |||| | | |  |||    || | | || |  |  |    || |||| |           || |   |  | | |||  |  |  ||        
TTCGGTGCTTATAACTGCTGTGATTACTGATGCAATTAAGAATGGTGTTGGTCGCCCACGCCCAGATTTCTTTTGGCGTTGTTTCCCTGATGGAAAGCCTgtaatatcctt-ttgtaa-----attctgatttctctccttaagcaatttcattcctatcgacat----gtacttggttta------gttctgtttatttcttttttttttacaga--------

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G050658_T01 (Zea mays), 5'ss of exon 5
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
||| || ||||| || ||||| || |||||||||||||| |||| |||||| || ||||||||||| || || ||||| |||||||||||||| || |  ||  |      || | |  ||  |  | ||||  |||  | |     ||| |  |  || | | | |  ||||   ||    | || | || | | |  || |||   |  | |          
CTCAGTGCTGATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTAATGGAAATGATgtaag------atgaaaataaaaacttatattcctgtagcaa-----gttcatgttggtatgtatatg-gttcaaaattg--cataaaatctggctaattacattatctttaag----------

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G447433_T08 (Zea mays), 5'ss of exon 6
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgtt-cttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 || || || || || || || || |||||||||||||| |||| |||||| || ||||| ||||| ||||||||||||||||| ||| |||| |||   ||     || |    |||||       | |||||| ||  ||||    || |   ||||| |   | | |   ||  |||||   | |  | | |||                            
TTCAGTGCTTATAACTGCTGTGATCACTGATGCAATTAAGGATGGTGTTGGTCGCCCTCGGCCAGATTTCTTTTGGCGTTGTTTTCCTGATGGCAAACCTgtaaatccttc----catcagtg----tcatttttctttgcaag----ttcatacctgttgaacctgtagccactaaatcagatatttgtt-atccag---------------------------

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GRMZM2G024615_T05 (Zea mays), 5'ss of exon 5
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
||| || || || || ||||| || |||||||||||||| |||| |||||| || ||||||||||| || || ||||| ||||||||| |||| || |  ||  | |       | || ||||| |||     | || |   ||   ||| |  | |||| || | | | |  || |  | |   |||       ||  |    |   |||||  ||  || ||
CTCAGTGCTCATAACTGCAGTGATTACTGATGCAATTAAGGATGGTGTTGGACGGCCTCGTCCAGATTTTTTCTGGCGCTGTTTCCCTGATGGAAATGATgtaagataa-----aaataaactaactta----tagtcctgtagcaagttcatctgtgttgatatgtatatggttcaaaacttgcatag------aatctgggctaattgcatt-atctttaag

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA09G18450.1 (Glycine max), 5'ss of exon 4
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttattt--ttgttcccaagattgt-tgacttctgtttatttt--tttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 |||||||| || || || || ||||| ||||| || ||||||| |||||| || || || ||||| ||||| ||||||||||||||| |||| ||||||||||| |||| |||  || ||||| |   ||||  ||  | ||   |   | |||    |   ||      | || | ||||| | |  |||  ||||                               
TTCTGTACTCATTACTGCGGTGATAACGGATGCTATCAAAGATGGTGTTGGACGGCCACGCCCAGATTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgggttctcaattttatgaactaccaagatttccttaatacctttaccatgtgatacgtagctaaagaaatatggtattgattactgttatgttcag-------------------------------

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA20G25650.1 (Glycine max), 5'ss of exon 4
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 |||||||| || || || || || |||||||| || || ||||||||||| || ||  | ||||||||||| ||||||||||||||| |||| ||||||||| | | || |||  ||  |||  |   || | |  |   || ||  ||  | | || |     |  || | ||    |||    | ||||   |||      ||||||||||   | || ||
TTCTGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcaattttatggactgccaagatatct--tgttaatatctttaccatgtgata--cgtactgcttttatgtagttaactgctcaataaacgccccattggtgcatgacatgtttag

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA10G41580.1 (Glycine max), 5'ss of exon 4
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
 || ||||| || || || || || |||||||| || || ||||||||||| || ||  | ||||||||||| ||||||||||||||| |||| ||||||||| | | ||  ||  ||  |||  |   ||  |  ||   || ||  ||  | | || |   | |  || | ||    |||    | | ||   ||       ||||||||||   |||||||
TTCCGTACTCATTACTGCGGTGATGACTGATGCTATCAAGGATGCTGTTGGACGGCCAAGGCCAGACTTCTTCTGGCGTTGTTTCCCTGATGGAAAAGGGgtgagttttcagttttatggactgccaagatagtc-ttgttaatatctttaccatgtgata--tgtactgcttttatgtagttaactgcacaataaatgccccattggtgcatgacatattcag

upper sequence: Vv01s0011g04180.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: AT1G15080.1 (Arabidopsis thaliana), 5'ss of exon 4
CTCTGTACTGATCACGGCAGTTATAACTGATGCAATTAAAGATGCTGTTGGCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctccattacatcaactatctttatttttgttcccaagattgttgacttctgtttatttttttgttcttgatcagtcctatactcagccaacatatatttggtgcatggattattcag
||||||||| || || |  || ||||| ||||| || || || |||||||| ||||||||||| || ||||||||||||||||||||| | || | ||||||  ||    ||   ||||  || |  ||| | || |     | |   |||  |    | |   |  |||   ||    | | |||                                      
CTCTGTACTTATAACCGGTGTCATAACCGATGCTATAAAGGACGCTGTTGGTCGACCTCGTCCTGATTTCTTTTGGCGTTGTTTCCCTGACGGTATAGGGgtaagcagcaca---catctcct-tgcttactcttat-----aaaaccttggataaactctgactggttgaatttctgaaattctag-------------------------------------

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|110423411|gb|EC989757.1|EC989757
EST:     GCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGG                         GTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTC
genomic: GCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctc ... gattattcagGTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTC
EST: gi|77588556|gb|DV223493.1|DV223493
EST:     GCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCAAATGGGAAAGGG                         GTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTC
genomic: GCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctc ... gattattcagGTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTC
EST: gi|110380481|gb|EC945749.1|EC945749
EST:     GCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCAAATGGGAAAGGG                         GTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTC
genomic: GCCGACCTCGTCCAGACTTCTTTTGGCGTTGTTTCCCTAATGGGAAAGGGgtgggctctc ... gattattcagGTGTTTGACACTAGAACAACAGATGTTCTGTGTACTGGAGACAAAAGTGTC