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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataacccttattttggaggttgagtaaatgttcttctttaccacatctag

Basic information

species Zea mays
transcript GRMZM5G879882_T02
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g53680.1 (Oryza sativa), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataac---ccttattttggaggttgagtaaa-tgttcttctttaccacatctag
||||||||||||| ||||||| |||||||| ||||||||||| ||||| ||||| |||||||| |||||||||||||||||||||||||| |||||||||||| ||| |   | | || | |||||| | ||||    |||||||||| |  ||| ||||| | | | | | |||    |||||
TGATATCCACAAAAGAGGTGGCACAGTTCTGGGAACATCACGGGGTGGTCATGACACCAAAAAAATTGTTGACAACATTCAAGATCGTGGTATTAATCAGgtaggtgttg--taactatt-tttcttagtataataatccttattttgaattttgggtaaaatatgcctgtgtactttgtctag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA05G36050.1 (Glycine max), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataacccttattttggaggttgag---taaatgttcttct---ttaccacatctag--------
|||||| || || || || || ||  | |||||  ||||||||||||| ||||| ||||  ||||| |||||||  ||||||||||| |||||||||||||| ||   |   |  |   | || |     |||||  | |||||| | || |     | | |  |||  |   ||||   ||| |         
TGATATACATAAGCGTGGGGGAACTATCCTTGGTTCATCACGAGGTGGACATGACACCACTAAGATAGTTGACAGTATTCAAGATCGGGGAATTAATCAGgtctgcattgcattctatttattacaacatataact-tcattttgtatgtagtaacatcagtagtctaataaattactcaatcaattccaccag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA07G15170.1 (Glycine max), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataaccct---tattttggaggttgagtaaatgttcttctttaccacatctag
|||||| || || || || || || || |||||||||||||||||||| ||||| ||||||||||| |||||||  ||||||||||| ||||| |||||||| ||  |||  |  | | |||  |  |  |||    |   |    || | ||  |  | ||     ||| |   |  |  ||
TGATATACATAAGCGTGGGGGAACTGTCCTTGGAACATCACGAGGTGGACATGACACCAAAAAGATAGTTGACAGTATTCAAGATCGGGGAATCAATCAGgtctgcacttctt--tcaatgtagcagtatatatttttgtgtgccgtgtaagtacatcagattaatatctctctgaatttcag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA08G03570.1 (Glycine max), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataacccttattttggaggttgagtaaatgttcttctt-taccacatctag---------
||| || || || || || || ||  | |||||  ||||||||||||| ||||||||||  ||||| |||||||  ||||||||||| |||||||||||||| ||   ||  |  |   | || |      ||||  | |||||| | ||  |  ||       |||  || | |||  |          
TGACATACATAAGCGTGGGGGAACTATCCTTGGTTCATCACGAGGTGGACATGATACCACTAAGATAGTTGACAGTATTCAAGATCGGGGAATTAATCAGgtctgcatttcattctatttattacaacatgtaact-tcattttgtatgtataaaaatcagcagtctaataactcattcaattccaccag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA06G09320.1 (Glycine max), 5'ss of exon 5
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgt-----atgtgcttgctg-atta--gtgtttctttgcataacccttattttggaggt--tgagtaaatgttcttctttaccacatctag-------------------------------------------------------------
||||||||| || || || |||||  ||||||| ||||||||||| || ||||||||    ||||| ||||||| ||| || ||||| ||||||||||||||     |||||   |||| ||||   ||    ||   || |   | | |  ||   |  | | | |  ||| |  | || | ||| ||                                                              
TGATATCCATAAGCGTGGGGGTACGATTCTTGGGACATCACGAGGGGGGCATGATACTGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcagctgtattataatgaagtttctgatgatgatgaatgcgggaatcataaattagagttttgttatatc-catgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgcttgggttatggttacag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA01G00870.1 (Glycine max), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataacccttattt-tggaggttgagtaaatgttcttctttaccacatctag
|||||| || || || || || || || || ||||||||||||||||| ||||| ||||||||||| |||||||  ||||||||||| ||||| |||||||| ||   ||             | | |   || |  |  | | || |  |    | ||  |   |||  |   ||     
TGATATACATAAGCGTGGGGGAACTGTCCTCGGAACATCACGAGGTGGACATGACACCAAAAAGATAGTTGACAGTATTCAAGATCGGGGAATCAATCAGgtctgcattt------------ctttctatttagcagtagtgtatgtacatcagattaacatctctctgaatttcag----

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA04G09180.1 (Glycine max), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgt-----atgtgcttgctg-atta--gtgtttctttgcataacccttattttggaggttgagtaaatgttcttctttaccacatctag-------------------------------------------------------------
||| ||||| || || || |||||| ||||||| ||||| ||||| || ||||||||    ||||| ||||||| ||| || ||||| ||||||||||||||     |||||    ||| ||||   ||    ||   || |   | | |       |  | | |  ||| |  | || | ||| ||                                                              
TGACATCCATAAGCGTGGGGGTACAATTCTTGGGACATCCCGAGGGGGGCATGATACGGGCAAGATAGTTGACAGCATCCAGGATCGAGGAATTAATCAGgtttaccatgtgtcaactgtattataatgaagtttctaatgatgatgaatgcaatcataaatttagagttttgttatatc-catgtacttaaaacctaagtaggttattgtcatcgcatgggttttcattgtttgggttatggttacag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: AT4G26270.1 (Arabidopsis thaliana), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataacccttattttggaggttgagtaaatgttcttctttaccacatctag-------------
||||||||| || || || || ||  | ||||| || ||||||||||| || ||||||| |||||| ||||||| |||||||||||| ||||| ||||||||      ||| | |  |     ||||| ||      |   ||   ||  |   || |   || |  ||     |  |               
TGATATCCATAAGCGTGGAGGGACTATCCTTGGGACCTCACGAGGTGGTCACGATACCACAAAGATAGTTGACAGCATTCAAGATCGAGGAATCAATCAGgt-----tttgataaccatcacctctttacaccgtgttctgttccaagagtacatacaaactcgttcttgatgtagtttttttcatcgttcag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: AT5G56630.1 (Arabidopsis thaliana), 5'ss of exon 5
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgcttgctgattagtgtttctttgcataacccttattttggaggttgagtaaatgttcttctttaccacatctag----------
||||||||| ||||| || || ||| |  |||| || ||| ||||||| ||||||||||| ||||| ||||| | |||||||||||| ||||| ||||||||  | |  |    |       | ||||  |       | |     | |||    ||   ||  |   |     ||||            
TGATATCCATAAACGCGGAGGAACAATCATTGGGACCTCAAGAGGTGGACATGATACCAACAAGATAGTTGATAGCATTCAAGATCGAGGAATCAATCAGgttagggaataaacacagccactgctttttacgttgtatgtga-aaaagtttgtcaaccttttcttgatgtagtatctgttatcatttag

upper sequence: GRMZM5G879882_T03 (Zea mays), 5'ss of exon 6
lower sequence: Vv04s0008g00520.t01 (Vitis vinifera), 5'ss of exon 6
TGATATCCACAAACGAGGTGGTACAGTTCTTGGAACATCACGAGGTGGCCATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtg-----cttgctgattagtgt-ttctttgcataacccttattttggaggttgagt---aaatgttcttctttaccacatctag------------------------------------------------------
||| ||||| ||||| |||||||| || ||||| |||||| |||| ||||||||||||  |||||| ||||||| |||||| |||||||| |||||||||||   |       |   |  | | ||| ||| ||  || |   ||||| ||     |||      |||  | |      |   | ||                                                        
TGACATCCATAAACGTGGTGGTACTGTCCTTGGCACATCAAGAGGAGGCCATGATACCTCAAAGATAGTTGACAGCATTCAGGATCGTGGGATTAATCAGgtgcctaaaggattaatttttcattgtgttccttaaatgatggttattatgatttctgaaattggaattctatgtgcagctgtaactgccagggcatgcaatttccatgcatgatgttgattcattttcttttgatgttccag

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

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|8367787|gb|BE050732.1|BE050732
EST:     ATGATACCAAAAAGATCGTTGACAACATTCAAGATCGTGGAATTAATCAG                         GTGTACATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
genomic: ATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgctt ... ccacatctagGTGTTCATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
EST: gi|14208413|gb|BG842091.1|BG842091
EST:     CATTCAAGATCGTGGAATTAATCAG                         GTGTTCATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
genomic: CATTCAAGATCGTGGAATTAATCAGgtatgtgctt ... ccacatctagGTGTTCATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
EST: gi|87153557|gb|DY398346.1|DY398346
EST:     ATGATACCAAAAAGATCGTTGACAACATTCAAGATCGTGGAATTAATCAG                         GTGTACATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
genomic: ATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgctt ... ccacatctagGTGTTCATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
EST: gi|19436208|gb|BM952618.1|BM952618
EST:     ATGATACCAAAAAGATCGTTGACAACATTCAAGATCGTGGAATTAATCAG                         GTGTACATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC
genomic: ATGATACCAAAAAGATTGTTGACAACATTCAAGATCGTGGAATTAATCAGgtatgtgctt ... ccacatctagGTGTTCATTATAGGAGGAGATGGAACTCAGAAGGGTGCATATGAGATTTAC