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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttctgcaagttggttctttctggctttctaactgacaaattttgttcatgtag

Basic information

species Vitis vinifera
transcript Vv06s0004g00240.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 5'ss of exon 6
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttctgcaagttggttctttctgg---ctttctaactgaca--aattttgttcatgtag-----
 || ||||||||||| |||||||||||||| || || ||||| || || |||||||| || || ||||| |||||| |||| || |  ||||| ||||||||||| ||   |  || ||||  |   |  ||| |  || | |   | || |  |  ||| |||   || |  |  |||    ||| ||| |  | |       
TCTCTATGTTGTTGAGGGAATGCAATTTGATCGCGGCTATATTTCTCCCTACTTTGTAACTGACAGTGAAAAAATGTCAGTGGAGTATGAGAATTGCAAGgtttg-atgcattctagaattcggtgtacttaa-actgtgcattaaccagatactcatttgtgggctctatgcatttgatgctaatgttgattctatcacccag

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 5'ss of exon 6
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttctgcaagttggttc--tttctggct-ttctaactgacaaattttgttcatgtag
 || |||||||| || |||||||| ||||| |||||||||||||| || || ||||| || || || ||||||||| | |  ||||  ||||||||||||||  || |    || |  |   |  |   ||  | |  | || ||  ||  || |||  |||||   |   |||  |  | | | || ||||     
TCTCTATGTTGTGGAGGGAATGCAGTTTGAACGTGGTTATATCTCCCCGTATTTTGTAACTGACAGCGAGAAAATGTCTGCAGAATATGAGAACTGCAAGgta-gcttcagcctgagcacacat-acccctgctgta-tgctgctttaatctgtttcagtttcttattgcactatgtttccactatttttcag----

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G083716_T04 (Zea mays), 5'ss of exon 5
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttctgcaagttggttctttctggctttctaactgacaaattttgttcatgtag---------------------------------------------------------------------------------------------
 || |||||||| || ||||||||||||||||||||||| ||||| || |||||||| || || |||||||||||| | |  || | |||||||||||||||     |       | ||| |  || | | | | |  |  || |||   ||  | |||||  | ||   ||   | |||      | |  ||                                                                                              
TCTCTATGTTGTGGAGGGAATGCAATTTGACCGTGGTTACATCTCTCCGTACTTTGTAACAGACAGTGAGAAAATGACTGCAGAGTACGAGAACTGCAAGgtaactgt-------aaaatatgagatatcaattcttttttttttgctgtttattgctttcctgtttcaaaagaaaaaaaaaactctgacctattggggggtgggggtaagacagttcctaggcaaacagcagttgctttcctgtttcagactattaatgctattgtctttcatcttcattgttcag

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G015989_T01 (Zea mays), 5'ss of exon 6
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttg-catttctctt-ataatt-taggagagctaatatggtact-tctgcaagttg-gttctttctggctttctaa--ctgaca--aattttgttcatgtag----
||| |||  |||||| |||||||| ||||||||||| ||||| || || |||||||| || || ||||| |||||| |||| || |  |||||||||||||||||    | | ||| || ||| ||  | |  |  | | || || |||   | | |   | ||| || |||    |  || ||    |||||  |  | |      
CCTCTATTCTGTTGAGGGAATGCAGTTTGACCGTGGCTATATTTCTCCCTACTTTGTGACTGACAGTGAAAAAATGACAGTCGAGTATGAGAACTGCAAGgtttgatgctccccttcatcattgtactaaaaattctgtagtgctatctagtaatagcagtttttatgacttctgtacgcttacggtgattttaattctattaccag

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA15G40110.1 (Glycine max), 5'ss of exon 5
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttctgcaagttggttctttctggctttctaactgacaaattttgttcatgtag
 || |||||||| || || ||||||||||||||||||||||| || || |||||||| || || |||||||||||||| |||||||  |||||||| ||||| ||   ||    | |  |    |  |  |  |||  |  ||   ||   |  ||| |  |   ||   |  | |||   | |||| ||| ||
TCTATATGTTGTCGAGGGGATGCAATTTGACCGTGGTTATATTTCTCCATACTTTGTTACTGACAGTGAGAAAATGGCCGTTGAATATGAGAACTGTAAGgtgtgacatttgtctgttttccctgtaacttgttattattttttaaca---tccttcatatttaattataactttacatggtatgtt-atgcag

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G18760.2 (Glycine max), 5'ss of exon 5
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttctgcaagt-tggttctttctggctttctaactgacaaattttgttcatgtag
 |||||||||||||| || |||||||| |||||||||||||| || || ||||| || || || |||||||||||||| ||||| |  |||||||| |||||  |   ||    | |  |    | ||  || |||  |    |  |  || |  ||  || | ||||| ||  ||  |  || ||         
TCTGTATGTTGTTGAGGGGATGCAATTCGACCGTGGTTATATTTCTCCATACTTCGTTACTGACAGTGAGAAAATGGCTGTTGAGTATGAGAACTGTAAGgtgagacatttgtctgttttccctgcgaattattattttttaacatcctgtgtatttacttatagctttata--tggtatgttatgcag------

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT5G56500.1 (Arabidopsis thaliana), 5'ss of exon 6
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttata-atttaggagagctaatatggtacttctgcaagttggttctttctggctttctaactgacaaattttgttcatgtag
||| || ||||||||||||||||||||||| |||||||||||||| ||||||||||||||||| ||||||||||||   |  ||||  |||||||||||||| |   | |   ||||| | |||  |    ||||| | |  |     |     ||  ||| || || | |  ||      | ||| |  |||||
CCTTTACGTTGTTGAAGGAATGCAATTTGATCGTGGTTATATCTCTCCTTACTTTGTCACCGACAGTGAGAAAATGTGTGCAGAATATGAGAACTGCAAGgtattattattgtttatacagtta--aatcttaata-gctgataaaaaaccgcagtattttttgactatatgtctct----tcttgcttttgtag

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G13470.1 (Arabidopsis thaliana), 5'ss of exon 6
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttataatttaggagagctaatatggtacttc--tgcaagttggttctttctggctttctaactgacaaattttgttcatgtag
||| |||||||| |||||||||||||||||||||||||||||||| || |||||||| || || |||||||||||| | ||||| |  || || ||||||||    |||| ||||   |||  |     | || ||| || |    ||||| | |   | |      ||||||     ||                
CCTTTATGTTGTGGAAGGAATGCAATTTGACCGTGGTTATATCTCCCCATACTTTGTGACAGACAGTGAGAAAATGTCTGTTGAGTATGACAATTGCAAGgta---atttttcttt--attctgagctaccaaaatgatattgtgatgcaaatag---cctaacaagtttctactgtgcag---------------

upper sequence: Vv06s0004g00240.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT1G55490.2 (Arabidopsis thaliana), 5'ss of exon 6
CCTGTATGTTGTTGAAGGAATGCAATTTGACCGTGGTTATATCTCACCTTACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcatttctcttata-atttaggaga--------gctaatatggtacttctgcaagttggttctttctggctttcta-actgacaaattttgttcatgtag-----------
||| || || || |||||||||||||||||||||||||||||||| ||||||||||| || || || ||||||||| | || || ||||| || ||||||||     |||||   ||     ||| |||        | |   |   || ||   ||     | | ||| |   |   || |   || |  |||  |  | | |           
CCTCTACGTCGTAGAAGGAATGCAATTTGACCGTGGTTATATCTCTCCTTACTTTGTGACAGACAGCGAGAAAATGTCCGTCGAGTTCGACAATTGCAAGgtagatgtttcttgaatctgagtagaagatgaattttgttggcagactatttagccactaaagatatttatatatgagtataacaacgatctttaatgttttggtatgattgcag

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|351017572|gb|FQ435925.1|FQ435925
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|110701933|gb|EE080073.1|EE080073
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|110686609|gb|EE064441.1|EE064441
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|110699104|gb|EE077129.1|EE077129
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAAT-CGAGAACTGCAAG                         TTGCTTCTTGTANACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|351036299|gb|FQ458674.1|FQ458674
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACCAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|34550178|gb|CF518396.1|CF518396
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|110713396|gb|EE089279.1|EE089279
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|30256318|gb|CB972161.1|CB972161
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGGCAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|71864487|gb|DT013542.1|DT013542
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
EST: gi|349815356|gb|FQ400511.1|FQ400511
EST:     ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAG                         TTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT
genomic: ACTTTGTCACCGATAGTGAGAAAATGGCAGTTGAATTCGAGAACTGCAAGgtttgcattt ... gttcatgtagTTGCTTCTTGTAGACAAGAAGATAACAAATGCAAGAGATCTCATTAATGTT