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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag

Basic information

species Oryza sativa
transcript LOC_Os02g17320.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G169462_T01 (Zea mays), 5'ss of exon 7
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaatt--atttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag
 ||||||||| |||| |||||||||||||| ||||| ||||| |||||||||||  ||||| ||||||| ||| ||||||| |||||||||||||||||||||| | |||| | |||  || |       || ||| |||||   | | ||| | ||||||   |   || | ||| |||| | | || |   | || |    | || |                                          
GGCAATTGACCTAATCGTTCAGCATATTCGGACTAAACTTGGACAACATGATCTTCGTAAAATACACCCTAATCTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaaacattcattt-------ttgttttttatagttctgcttgctgtttgatgtccctgtagt-ttgtatgt-actccattctaaattgtaagctgtttt------------------------------------------

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G034143_T01 (Zea mays), 5'ss of exon 8
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag
 ||||||||  |||| ||||| |||||||| ||||| ||||| || |||||||| || ||| ||||||||||||||||||| |||||||||||||||||||||| | |||| |     ||  | |     | ||||  |  |||   | ||| | ||||||  |   | |      | |||  | ||| | ||   | ||     | | | |                                     
GGCAATTGATCTAATTGTTCAACATATTCGGACTAAACTTGGACAGCATGATCTTTGCAAAATACACCCCAATTTGTATGTAATTCAGACTACTTATCAGgtacctaatgtaa-----aacattcatttttatttttctgaaaatttgtttgctgtttgattgt---aaacggagaactgtagaggcattgatgcatagag----gcatcat-------------------------------------

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA14G01480.1 (Glycine max), 5'ss of exon 6
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttcttt-cag
 || ||||| || || || || |||||||| || ||||||||||| |||||  | |||||| || | || ||||| |||||||||||| |||||| ||||||||  | |       |   | |  |   || |||    || |  ||   | ||    | ||||||   | |    |||       | ||| ||| |   ||||| |      || || |   | |||  | ||  ||  |||  | |||
GGCTATTGATTTGATTGTACAACATATTCGCACGAAGCTTGGTCAGCATGACTTGTGTAAAATATATCCTAATTTATATGTCATTCAGTCTACTTTTCAGgtacccctttc-----ttgttat-ttatggtctttatcaatcatccca--tcttccccgttaatctggaacttccaaatt------cgatttttttt---tttttat------taaaagttgaatcatcacgataattgcttcgatgcag

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA08G45270.1 (Glycine max), 5'ss of exon 8
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag
 || ||||| || || || |||||||| || || ||||||||||| ||||| || |||||| || | || |||||||||||||||||| | |||| ||||||||           ||     |  | || || | ||   || |||        |||||||  | |||| | | | ||    |     ||  || ||     | || ||                                        
GGCCATTGATTTGATTGTACAGCATATCCGCACAAAGCTTGGTCAGCATGACCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGgtaccctgca-atttatgggcct-tttcaattatctcacttagaactc-caaacttttgattttgtcattacagttaa-accatcttgatagttgcta---ctatgcag----------------------------------------

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA18G08180.1 (Glycine max), 5'ss of exon 8
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag
 || ||||| || || || ||||||||||| || ||||||||||| ||||| || |||||| || | || |||||||||||||||||| | |||| ||||||||           ||  |  |  | || || | ||    | |||        |||||||  | |||||| | | || |  |     || ||| ||     | || ||                                        
-GCCATTGATTTGATTGTACAGCATATTCGCACAAAGCTTGGTCAGCATGACCTGTGTAAAATATATCCTAATTTGTATGTCATTCAGTCAACTTTTCAGGtaccctgca-atttatggacct-tttcaattatctcactgagaactc-caaacttttgattttgtcataaaagttaa-gccatcttgataattgcta---ctatgcaga---------------------------------------

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT4G26510.2 (Arabidopsis thaliana), 5'ss of exon 8
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag
 || ||||||||||| || || |||||| | || ||||| ||||||||||||||||||||| || | || ||| | || || || ||  | || | ||||||| || || |  | ||              |  |    |||  |   |   | | || |  | |  | || ||  |     ||    |||  |  || |                                                 
AGCTATTGACTTAATTGTGCAACATATTTGCACCAAGCTGGGTCAACATGATCTCTGTAAAATATATCCTAATCTCTACGTTATACACTCGACATTTCAGgtaattgatatatcaat-------------ctcatctacatacgagtaacattctcttaactaccaaacaagatccaga---aaattgatttctcttgcag------------------------------------------------

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv19s0015g01730.t01 (Vitis vinifera), 5'ss of exon 8
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgta--------cttcatgtg-accataa--atgtgctgcagttttttct-----tataaaaccgattgttttttgat----aatctcataatattg--aatgttaatgca-attatttc-tggattt----ttgtagcgtatataaatattagcatttcaattcttctttctttcag---------------------
 || ||||| || || || || ||||||||||| || ||||| ||||||||||| |||||| || | || ||| | |||||||||||  | |||| |||||||        |||| | |   | || |  || | |||  | | | | |     | |     ||  |||||||  ||    ||| ||||   ||||  ||||| |   || || || |  ||||||     ||      ||| |   ||||    || ||| | |  | |  || |                      
AGCCATTGATTTGATTGTGCAACATATTCGTACAAAACTTGGACAACATGATCTTTGTAAAATATATCCTAATCTTTATGTCATTCAATCAACTTTTCAGgtatatcagctcttcctatttgctattattatttactgtgggtgtgtgtgcctgtgtgtgtgcgtgtgtttttaaattccaaatttcatgtcattgtaaatgtaaggtcacatgatcttgtggattcgatattcagttttatttgcctattgaagttccaaatttcatatgattgaagctttatttgatttgatccag

upper sequence: LOC_Os02g17320.1 (Oryza sativa), 5'ss of exon 8
lower sequence: PP1S19_94V6.1 (Physcomitrella patens), 5'ss of exon 7
TGCAATTGACTTAATAGTTCAGCATATTCGTACTAAGCTTGGTCAACATGATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatgtgaccataaatgtgctgcagttttttcttataaaaccgattgttttttgataatctcataatattgaatgttaatgcaattatttctggatttttgtagcgtatataaatattagcatttcaattcttctttctttcag
 || |||||  | ||||||||||||||||| |  || |||||||||||||||||| | ||| || | || ||| | | ||| || ||| | |||| ||||||| |   |     | || ||   | |||||||  |   | |  |    | ||  || ||   ||||  | | |  | ||||  |   ||| |||   || |                                               
GGCTATTGATCTTATAGTTCAGCATATTCGCATGAAACTTGGTCAACATGATCTCCGCAAAATATATCCGAATGTATTTGTTATCCAGTCCACTTTTCAGgtattgtcta-attcttatat---cagcagtttcatggga-atgataagtcgtcattcgaagttctcgaagtttccagtgttcctcacattgttttgtgagtgaa--------------------------------------------

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|86902718|gb|CI306521.1|CI306521
EST:     ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAG                         ATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
genomic: ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatg ... tttctttcagATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
EST: gi|33675270|gb|CF303509.1|CF303509
EST:     ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAG                         ATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
genomic: ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatg ... tttctttcagATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
EST: gi|29643325|gb|CB648332.1|CB648332
EST:     ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAG                         ATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
genomic: ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatg ... tttctttcagATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
EST: gi|12623049|gb|AU173262.1|AU173262
EST:     CATTCAGACTACTTATCAG                         ATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
genomic: CATTCAGACTACTTATCAGgtacttcatg ... tttctttcagATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
EST: gi|33794950|gb|CF323355.1|CF323355
EST:     ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAG                         ATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
genomic: ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatg ... tttctttcagATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
EST: gi|66922909|gb|CX109757.1|CX109757
EST:     ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAG                         ATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT
genomic: ATCTCTGTAAAGTACACCCCAATTTGTATGTCATTCAGACTACTTATCAGgtacttcatg ... tttctttcagATACGAGGTATGCACACAATAATACGGGATGCTGCCACAACAACACATGAT