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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag

Basic information

species Vitis vinifera
transcript Vv11s0016g02850.t01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os05g44922.1 (Oryza sativa), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
||| || || ||  | || || ||  | ||||| |||||||||||||||||||||||   |||||| |||||||  ||||||||||||||||| ||||||||        ||| |  ||  |||  |    ||| |||   |    ||| || |  |   | | |  |   | |  | |||   |                                          
TGACATCCACAAGAGGGGTGGGACAGTTCTTGGCACATCACGAGGTGGCCATGATACAAAAAAGATTGTTGACAACATTCAGGATCGTGGAATTAATCAGgta-------aatgcggttgtttgcac---ctatgtgatatagctcttctgattggtcattgtctcatgtgcttatgtacattacccag--------------------------------------

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os06g05860.1 (Oryza sativa), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgt-------ctgtagacaatactatttcttgtccaa----gttatctgagtcacactttcggagttttgtgtatttgctacacctgggc-acacctcttcaatgcatggacgttagatttatagctttgttgatc--tcag
 || ||||| ||| | || |||||  | |||||||||||||| || |||||||| |||   ||||| |||||||| || ||||||||||| || ||||||||        || |  | ||  |||| ||| ||  |    ||| | ||| |||   |   |    | ||   |||   |  ||||     | || ||||  || ||    |||| |  ||| |  |||||  ||    |||
CGACATTCACAAAAGGGGTGGAACTGTTCTTGGGACATCACGTGGAGGCCATGACACCATGAAGATTGTTGACAGCATCCAGGATCGTGGTATAAATCAGgtaaaggaaatggatgccattttattacttttcagacactgttttatgaatcaatttacagatagtatgaagattc-ttctacctaactgaaacatcttacattca---gcgttgg--ttacaagtttgtgcattgtccag

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
|||||| || ||||| || || ||  | ||||| ||||||||||||||||||||||||  |||||| |||||||  ||||| ||||||||||| |||||||| |||      | ||  ||  |||     ||   | |  |  | ||| |  |||  | |||  || |   | |   |||| ||                                           
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgct---tgctgattagtgtttct-ttgcataacccttattttggaggtt--gagtaaatgttcttctttaccacatctag-----------------------------------------

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G004932_T01 (Zea mays), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
||| || || ||| | || || ||  | ||||| |||||||| |||||||||||||||  |||||| ||||| |  ||||| |||||||||||||| |||||    | |  ||   |  | |||    |   |  | | ||      | ||||   |   |   || || ||  | || | | | | ||                                      
TGACATCCACAAAAGGGGTGGTACAGTTCTTGGAACATCACGCGGTGGCCATGATACCAAAAAGATTGTTGATAACATTCAAGATCGTGGAATCAACCAGgt--aaacatgattgcacctattgatataac-acataactcttctgattggagaagt---tgactgatatactagagcgc-cttatccag-------------------------------------

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM5G816636_T02 (Zea mays), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgt---atttgctacacctgggcacacctctt---caatgcatggacgttagatttatagctttgttgatctcag--------------
||| ||||| ||| | || |||||  | || ||  |||| ||||| |||||||| |||   ||||||||||||||||| || |||||||| || ||||||||   |  |  | | ||    || | |   | ||||   || |  ||  | |    | |||   |||| ||    ||| | | ||   ||   ||| |  ||    ||| | ||  |  || ||| | ||| |              
TGACATTCACAAAAGGGGTGGAACTGTTCTCGGATCATCTCGAGGAGGCCATGACACCGTGAAGATAGTTGACAGTATCCAAGATCGTGGCATAAATCAGgtaaatgaaacaaaataacaattatactcttaatctttttctcttttatgtatcactctgtcttatttcctggcactgtgaagactcttttaccaaggtttgacacttaaactttcacattggtttaactctgattatttgtttcag

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA07G15170.1 (Glycine max), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
|||||| ||||| |||||||||||  | ||||| |||||||||||||| ||||| |||  ||||||||||||||||||||| ||||| ||||||||||||||||| |           |||||   |||  || | |  | | | ||| |  ||   |||||  | |  ||  |    |   ||||  | | ||                                 
TGATATACATAAGCGTGGGGGAACTGTCCTTGGAACATCACGAGGTGGACATGACACCAAAAAGATAGTTGACAGTATTCAAGATCGGGGAATCAATCAGgtctgca----------cttctt--tcaatgtagcagtat-atatttttgt-gtgccgtgtaagtacatcagattaatatctctctgaatttcag--------------------------------

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA08G03570.1 (Glycine max), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
||| || ||||| ||||||||||| || |||||  ||||||||||||| ||||||||| | |||||||||||||||||||| ||||| ||||| ||||||||||| |    || |||||| ||     |  || ||   |      |    |    |  | | |    | | ||      |   |  ||                                      
TGACATACATAAGCGTGGGGGAACTATCCTTGGTTCATCACGAGGTGGACATGATACCACTAAGATAGTTGACAGTATTCAAGATCGGGGAATTAATCAGgtctgcatttcattctatttattacaacatgtaacttcattttgtatgtataaaaatcagcagtc-taataactcattcaattccaccag-------------------------------------

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G00870.1 (Glycine max), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
|||||| ||||| |||||||||||  | || || |||||||||||||| ||||| |||  ||||||||||||||||||||| ||||| ||||||||||||||||| |     | ||||||         || || |   ||| | |  |     | ||  | |  |                                                             
TGATATACATAAGCGTGGGGGAACTGTCCTCGGAACATCACGAGGTGGACATGACACCAAAAAGATAGTTGACAGTATTCAAGATCGGGGAATCAATCAGgtctgcatttctttctatttagcagtagtgt-atgtacatcagattaacatctctctgaatttcag-------------------------------------------------------------

upper sequence: Vv11s0016g02850.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA05G36050.1 (Glycine max), 5'ss of exon 6
TGATATTCATAAACGTGGGGGAACCATACTTGGGACATCACGAGGTGGCCATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagacaatactatttcttgtccaagttatctgagtcacactttcggagttttgtgtatttgctacacctgggcacacctcttcaatgcatggacgttagatttatagctttgttgatctcag
|||||| ||||| ||||||||||| || |||||  ||||||||||||| ||||| ||| | |||||||||||||||||||| ||||| ||||| ||||||||||| |    || |||||| ||   |||  |||   |    || |||    || |   |||    |   |       | |   || ||||  ||   |   ||                       
TGATATACATAAGCGTGGGGGAACTATCCTTGGTTCATCACGAGGTGGACATGACACCACTAAGATAGTTGACAGTATTCAAGATCGGGGAATTAATCAGgtctgcattgcattctatttatta--caacatat---aacttcatttt----gtatgtagtaacatcagtagtctaataaattact-caatcaattc-caccag-----------------------

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|161717475|gb|FC066878.1|FC066878
EST:     ATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAG                         GTTTACATAATTGGAGGTGATGGAACTCAAAAAGGGGCATCTGTGATTTTT
genomic: ATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagac ... ttgatctcagGTTTACATAATTGGAGGTGATGGAACTCAAAAAGGGGCATCTGTGATTTTT
EST: gi|27584897|gb|CB007592.1|CB007592
EST:     ATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAG                         GTTTACATAATTGGAGGTGATGGAACTCAAAAAGGGGCATCTGTGATTTTT
genomic: ATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagac ... ttgatctcagGTTTACATAATTGGAGGTGATGGAACTCAAAAAGGGGCATCTGTGATTTTT
EST: gi|110416399|gb|EC982380.1|EC982380
EST:     ATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAG                         GTTTACATAAT
genomic: ATGATACCTCAAAGATAGTTGACAGTATTCAGGATCGTGGAATCAATCAGgtctgtagac ... ttgatctcagGTTTACATAAT