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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttcttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtag

Basic information

species Oryza sativa
transcript LOC_Os02g44510.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 5
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctta-tgttatattcatc--cttgtag---attcatgaccatc-cttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtag
||||||||||||||| ||||| ||||||||||||||  | |||||||||||||| |||||||| ||||| |||||||| ||||||||||||||||||||||||    |    || | |  | |||  |||||      | ||   ||||| ||  ||| ||    |   ||   |     |  |||  |  | | | || |  ||| ||| ||  |||||
ATGGCCAACATGGTTACACAAGCAGAAAGAGAAGCAAAGGATTATATGGGCATATAAGATCTTATTTCTGGATGTCATTTTTCCACTTTCACTGAGGAAGgtaccccccccctgctgttctaatcagcttgtgatgtgtgcaattccatcactcttttttagaacattaaaataatctgaccacgttctaaaaacttttcccatgatactctctgtgtag

upper sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA08G20020.1 (Glycine max), 5'ss of exon 32
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtat------tttcttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagccacagttcatcgtg----atggataatatt-actctgacactttccatgtag---------------------------------
|||||| ||||||||||| || |||||||| ||||||||||| || |||||||| || || || || || |||||||| ||||| |||||  ||  ||||||||      |||||| |  |  ||  |  |   |   || ||     | ||  | |  ||  | | |  | ||  ||    | ||    |   ||   ||| ||   ||  ||    ||| |                                  
ATGGCCTACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAATAATTTGGGCATATAAAATTTTATTCCTTGATGTCATCTTTCCCCTTTCCTTGGAGAAGgtatcatgattttcttcttctgcatcaaatcccatgcttttatt-ttgttctcttctgcactcttaat--gtcatggtgtcacatgcaccacacatggcattgacaaggatgctggtaatgaaaagaaaatttttacttaaaaatttgtgtttgcag

upper sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA05G30230.1 (Glycine max), 5'ss of exon 33
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttcttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtag
 ||||| ||||||||||| || |||||||| ||||||||||| || |||||||| || ||||| || ||||||||||| || || |||||  ||  |||||||   ||  |  || |  |  | | |  || | |||| |  |   | ||| |   ||    ||   |   ||||  ||    ||  | |  ||||| | | | |        
GTGGCCCACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAATAATTTGGGCATATAAAATCTTATTCCTAGATGTCATTTTCCCCCTTTCTTTGGAGAAGgta---tcacagtttcttcttctgcatcaagttccatg-cttttggtttttgtcttttgcacaattaat--ttcaatgt--cagactacacaactcttagaatgttgg-----

upper sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GLYMA08G13400.1 (Glycine max), 5'ss of exon 35
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttcttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtag----------------------------------------------------
 ||||| ||||||||||| || |||||||| ||||||||||  || |||||||| || ||||| || ||||||||||| || || |||||  ||  |||||||      | | || |  |  | | |  || | ||||    |  || ||| |   ||    |      | ||||  || |      | | | || |||||      ||| ||                                                    
GTGGCCCACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAAGAATTTGGGCATATAAAATCTTATTCCTAGATGTCATTTTCCCCCTTTCTTTGGAGAAGgtaccacagtttcttcttcttctgcatcaagttccatg---ctttttgtttttgtcttttgcactattaatttcaatgtcacactacacaatgctgtgacaaagataatgaagaattaaaatcccttacaggaaaatctgtctaaaatctaccaatattatgcag

upper sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12
lower sequence: AT1G71220.2 (Arabidopsis thaliana), 5'ss of exon 32
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttcttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagccacagttcatcgtgatggataatattactctgacactttccatgtag
||||||  | |||||||| ||||||||||| ||||| |||||||| ||||| ||||| ||  | || || |||||||||||||| || ||| ||   ||||||     | ||  ||| |||||   |     ||| || | ||  | ||   |     |  | |     || |  |||  |||  |  | |                      
ATGGCCGTCCTGGTTGCATAAACAGAAAGAAAAGCAACGAATTATTTGGGCCTACAAAATTCTTTTCCTTGATGTCATATTTCCTCTCTCATTGGAAAAGgtacaga-tgatcatattttcatttct-----ttcttg-cgattttgatgcttggaagatgtcactataaggtattcgacatgtgttctgtag--------------------

upper sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv12s0034g02230.t01 (Vitis vinifera), 5'ss of exon 33
ATGGCCAACATGGTTGCACAAACAGAAAGAGAAGCAGCGAATTATATGGGCATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtatttt---cttatgttatattcatccttgtagattcatgaccatccttatttatacgttaactaagcca---cagttcatcgtg-atggataatattactctgacactttccatgtag--------
|||||||||||||||||| || |||||||| |||||||||||||| |||||||| || ||| |||| || ||||| || || ||||||||  ||   |||||| |||    | | ||  |  | |  | |  ||           | |   || || | |   || |  |    ||  |   | || ||| |||   || | |   |  |     ||||         
ATGGCCAACATGGTTGCATAAGCAGAAAGAAAAGCAGCGAATTATCTGGGCATATAAAATCCTGTTCCTTGATGTTATTTTCCCACTTTCTTTGGAAAAGgtaatttggtttcaagtcctgcttaaacatagagtgctgccttgtttccatttcattcatcttcttatgctttccaacttcacatgcatgtatagcttttcacaatctatcaatgtgtatatctgcag

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|58658861|gb|CK047541.1|CK047541
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
EST: gi|58609426|gb|CK037459.1|CK037459
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
EST: gi|58678387|gb|CK067074.1|CK067074
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
EST: gi|218480649|gb|FG956875.1|FG956875
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
EST: gi|58692422|gb|CK081109.1|CK081109
EST:     CATA-TTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
EST: gi|29624544|gb|CB629555.1|CB629555
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGANGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTG
EST: gi|58687397|gb|CK076084.1|CK076084
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACT
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTA-TTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACT
EST: gi|428777|gb|D24933.1|D24933
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
EST: gi|58658473|gb|CK047153.1|CK047153
EST:     CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAG                         GTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG
genomic: CATACAAGATCTTGTTTCTAGATGTCATATTTCCACTTTCACTGAGGAAGgtattttctt ... ttccatgtagGTTATTTTTGTTGACGCAGATCAAATTGTGAGAGCAGACATGGGAGAACTG