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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagactttgtcaaccgaatgactaaaaagaagccatatgatgactgatacataatctagctgtactctaattttcag

Basic information

species Oryza sativa
transcript LOC_Os06g36770.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G165418_T01 (Zea mays), 5'ss of exon 10
CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagactttgtcaaccgaatgactaaaaag-aagccatatgatgactgata----cataatctagctgtactctaattttcag
|||||||||||||||||| ||||||| ||||||||||||||||| || |||||||||||||| || ||||||| | | | ||||| |||| | ||||||| |||| || ||||||   | |      |||| |     ||     | ||||||
CTATGGGATCTAAACATGAATTCAGGCCCTGTTTCAACCTTCCAAGTCCATGAACATTTAAGACCTAAGgtgaaattctctcaactgaataattaaaaaggaagctatttgatgaacaaaagtaatgtaattttatgatatcactactttcag

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 10
CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagactttg----tcaaccgaatgactaaaaagaagccatatgatg-------actgatacataatctagctgtactctaattttcag--------
 | |||||  | || ||||||||||| || ||| |||| ||||||||||||||  ||||||| |||||||| ||| |       | |    | |||  ||  |  |     ||  |           ||   |||| || | | || | ||  ||| |         
TTGTGGGACATTAATATGGATTCAGGCCCCGTTGCAACTTTCCAGGTTCATGAGTATTTAAGACCCAAGgttagattcctgtgtttagataagtgatgaattatgaatttcattctactgctttgtcgagttataa-ctggttatattttatgtttgaacatgccag

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA08G20830.4 (Glycine max), 5'ss of exon 10
CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagactttgtcaaccgaatgactaaaaagaagccatatgatgactgatacataat--ctagctgtactctaattt-tcag
 |||||||  | || |||||||| ||||| ||| |||| ||||||||||||||  |||||||||| ||||| ||| |         | ||||  ||  |    |       | |   |   ||| |  || ||| |  | |  ||   |||
TTATGGGACATCAATATGGATTCTGGTCCAGTTGCAACGTTCCAGGTTCATGAGTATTTAAGGCCAAAGgttagattcccatgtttggatgagcaatgaatttctgctgctttatcaagttatagtaactggctcttttttttttggccag

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 10
CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagactttgtcaaccgaatgactaaaa---agaagccatatga-tgactgataca--taatctagctgtactctaattttcag-----------------------------------
|| |||||  | || |||||||||||||||||| |||| || || ||||||||| |||| |||||||||||| || ||| |       |   |||  |   | | |||| || |   ||  ||| |  | |||||  ||||   |  | | ||                                    
CTTTGGGACATCAATATGGATTCAGGTCCTGTTGCAACTTTTCAAGTTCATGAATATTTGAGGCCCAAGgtgcgattttcttcttttgaaatctatcatctaaaggccaaataagcaacctatataattgatctaagtgtatcattttatccataatgatggtgggacttgtactctgatcttgatcag

upper sequence: LOC_Os06g36770.2 (Oryza sativa), 5'ss of exon 10
lower sequence: Vv09s0002g02470.t01 (Vitis vinifera), 5'ss of exon 10
CTATGGGATCTAAACATGGATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagact-ttgtcaaccgaa-----tgactaaaaagaagccatatgatgactgatacataatctagctgtactctaattttcag-------------
 |||||||  | || ||||| ||||| || |||||||||||||||||||||||| ||||||| || ||||||||  |  | ||  | |||     | ||  | || ||    ||   |      | |||   |||  | ||| ||   ||||               
TTATGGGACATTAATATGGACTCAGGCCCAGTTTCAACCTTCCAGGTTCATGAATATTTAAGACCTAAGgtgagcttgctttcctcagaaaagtcttacacagaacaacttctacattactctctgcatg--ctaattttaccctctgtttctttccttctctccag

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|58655643|gb|CK044323.1|CK044323
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGG-TCGTGGA-ATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|58675521|gb|CK064208.1|CK064208
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|66913089|gb|CX099937.1|CX099937
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|58687462|gb|CK076149.1|CK076149
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|218499339|gb|FG949286.1|FG949286
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|218501369|gb|FG965487.1|FG965487
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|58658882|gb|CK047562.1|CK047562
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|25807737|gb|CA763698.1|CA763698
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|88411135|gb|CI606354.1|CI606354
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|58593657|gb|CF991965.1|CF991965
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|58674786|gb|CK063473.1|CK063473
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|29644040|gb|CB649047.1|CB649047
EST:     TCCAGGTTCATGAACCCTTAAGGCCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: TCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
EST: gi|58688813|gb|CK077500.1|CK077500
EST:     ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGGCCAAG                         TTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT
genomic: ATTCAGGTCCTGTTTCAACCTTCCAGGTTCATGAACATTTAAGGCCCAAGgtgagacttt ... taattttcagTTATGTGATCTGTATGAGAACGACTCAATATTTGACAAATTTGAGTGTTGT