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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACGAGGCGGAGATATCACCATCGACACTGTATGCCATTGCCTGCGTCATGGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaattttctgtgtagagtagtatgcggtttattttctcaggttcatggcttatttgtttactgtgtacag

Basic information

species Oryza sativa
transcript LOC_Os03g09250.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G145638_T02 (Zea mays), 5'ss of exon 1
AACGAGGCGGAGATATCACCATCGACACTGTATGCCATTGCCTGCGTCATGGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgt--aattttctgtgt----agagtagtatgcggtttattttct---caggttcatggcttatttgtttactgtgtacag
|||||||||||||| || ||||| ||||| |||||||||||||| ||||  |||||  |  ||||||| || ||||| || |||||||| |||||||||||| |||  | |||  |||||    | |||  ||||  |||   |||||   ||    | |    || |||||   ||| |  ||
AACGAGGCGGAGATCTCGCCATCAACACTATATGCCATTGCCTGTGTCACAGAGGGGGTGTCGTTCATCAATGGGAGCCCCCAGAACACTTTTGTGCCTGgtgtgtttagtttggtgtgtttgcaaagttttatggtgttgcatttctgttcaaagacttattatacttgttgcatgtttgtag

upper sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G155242_T01 (Zea mays), 5'ss of exon 5
AACGAGGCGGAGATATCACCATCGACACTGTATGCCATTGCCTGCGTCATGGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaattttctgtgta---gagtagtatgcggtttattttctcaggttcatggcttatttgtttactgtgtacag----------------------------------
|||||||||||| |||||||||| ||||| |||||||||||||| |||||||||||  | |||||||| || ||||| || |||||||||||||||||||||  ||  |||  |||||     |    |    ||| |    | || | | ||  | ||  | || |  | | |                                      
AACGAGGCGGAGGTATCACCATCAACACTATATGCCATTGCCTGTGTCATGGAGGGGGTGCCGTTCATCAATGGGAGCCCCCAGAACACCTTTGTGCCTGgtgcgtggtttggtgtgtttgcaaaagcttcatggtgttgcatttctgttccaaagtttcatggtgttgtatttctgttccaaggcttattatacctgttgcatgttcgtag

upper sequence: LOC_Os03g09250.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G004528_T03 (Zea mays), 5'ss of exon 5
AACGAGGCGGAGATATCACCATCGACACTGTATGCCATTGCCTGCGTCATGGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgt--aattttctgtgt----agagtagtatgcggtttattttctc----aggttcatggcttatttgtttactgtgtacag
|||||||||||||| || ||||| ||||| |||||||||||||| |||| ||||||  | |||||||| || ||||| || |||||||| |||||||||||| |||  | |||  |||||    | |||  ||||  |||   | |||     |    | |    || ||||||  ||| |  ||
AACGAGGCGGAGATCTCGCCATCAACACTATATGCCATTGCCTGTGTCACGGAGGGGGTGCCGTTCATCAATGGGAGCCCCCAGAACACTTTTGTGCCTGgtgtgtttagtttggtgtgttcccaaagttttatggtgttgcatctctgttcaaaaaacttattatacttgtttcatgtttgtag

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|218495019|gb|FG965569.1|FG965569
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|58598823|gb|CK009351.1|CK009351
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|3760166|gb|C97424.1|C97424
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|11443012|gb|BF430899.1|BF430899
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|218494828|gb|FG945589.1|FG945589
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|29686334|gb|CB682609.1|CB682609
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|58675021|gb|CK063708.1|CK063708
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|2312304|gb|C28459.1|C28459
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|58598555|gb|CK009083.1|CK009083
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|218485553|gb|FG949786.1|FG949786
EST:     CCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: CCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
EST: gi|218487632|gb|FG964358.1|FG964358
EST:     GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTG                         GGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT
genomic: GGAGGGTATACCGTTCATTAACGGGAGTCCTCAGAACACCTTTGTGCCTGgtatgtaatt ... ctgtgtacagGGCTGATCGATCTTGCTATTAAGAACAACTGCCTGATTGGTGGTGATGATT