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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGCGCCGGCGTCTACAAGGGCGTCACCACCAGCCAGCTCGGCGAGCTCGCGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccctccgcgactgatccgtacgctacacgcggtcgtctggggcgatccgatggttattgactggatgtggcgctgattcatttacactgtgaag

Basic information

species Oryza sativa
transcript LOC_Os02g56100.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g56100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA06G15350.1 (Glycine max), 5'ss of exon 1
CTGCGCCGGCGTCTACAAGGGCGTCACCACCAGCCAGCTCGGCGAGCTCGCGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccctccgcgactgatccgtacgctacacgcggtcgtctggggcgatccgatggttattgactggatgtggcgctgatt-catttacactgtgaag
|||||||||||| ||||| ||||||||||||||||| || | |||  | || || || || || |||||||||||||||  ||| ||||||||||| |  || ||    ||| | | |     ||    |    |   | || ||    |    ||| |||  | | ||  | ||    |  || ||              
CTGCGCCGGCGTTTACAAAGGCGTCACCACCAGCCAACTTGACGAATTGGCCGCCGAAACTGCTGCCGCCATGACCGCCAACCATCCCGACTACGCTTGCgttag--tttcctcaattttctggtcaattggttgaaattgtgtgttttggatggattgtt-ctaagtgattttgttttttgttgcag-------------

upper sequence: LOC_Os02g56100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA05G32070.1 (Glycine max), 5'ss of exon 1
CTGCGCCGGCGTCTACAAGGGCGTCACCACCAGCCAGCTCGGCGAGCTCGCGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccctccgcgactgatccgtacgctacacgcggtcgtctggggcgatccgatggttattgactggatgtggcgctgattcatttacactgtgaag
 ||||| ||||||||||| ||||||||||| ||||||||||  ||| | |||||||| |||||||| || |||||||||  |||||| ||||| || || || ||   || | |   |    ||  |  |    | |||    |     |     | || |  |  |||  ||||    ||  |    | ||        
GTGCGCTGGCGTCTACAAAGGCGTCACCACTAGCCAGCTCGATGAGTTGGCGGCGGAAACCGCCGCGGCTATGACCGCCAACCACCCTGACTATGCTTCTgtgagattcttctctttt--ctcgcgctttttttgtggtt-catattatggcttaaaggctgat--ctg--tgtgattttgtgtttggtgcag-------

upper sequence: LOC_Os02g56100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: GLYMA04G39500.1 (Glycine max), 5'ss of exon 1
CTGCGCCGGCGTCTACAAGGGCGTCACCACCAGCCAGCTCGGCGAGCTCGCGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccctccgcga--ctgatccgtacgctacacgcggtcgtctggggcgatccgatggttattgactggatgtggc-gctgattcatttacactgtgaag
|||||||||||||||||| ||||||||||||||||| |||| |||| | || || || |||||||||||||||||| ||  ||| ||||||||||| |  || ||  ||  |      ||  ||| |  | |  |   |   |||| ||  |    |||  || |  | ||  | ||   | || | ||              
CTGCGCCGGCGTCTACAAAGGCGTCACCACCAGCCAACTCGACGAGTTGGCCGCCGAAACCGCCGCCGCCATGACCACCAACCATCCCGACTACGCTTGCgttagttccctcaaatttctattccatttgatgaaattgtgtgtcttggatggatggattattgt-aagtgattttgtttgttgttgcag-------------

upper sequence: LOC_Os02g56100.1 (Oryza sativa), 5'ss of exon 1
lower sequence: Vv07s0031g01990.t01 (Vitis vinifera), 5'ss of exon 1
CTGCGCCGGCGTCTACAAGGGCGTCACCACCAGCCAGCTCGGCGAGCTCGCGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccctccgcgactgatccgtacgctacacgcggtc-gtctggggcgatccgatggttattgactggatgtggcgctgattca---tttacactgtgaag
 ||||| || ||||||||||||||||| ||||||||||| |  ||  | || || || |||||||| || ||||| |||   |||||||| || ||||||||  |    ||  |   |  | | | |  |     |  |  ||||        |  | | | ||||| |    ||||   |  || |   ||    ||||    
GTGCGCTGGGGTCTACAAGGGCGTCACTACCAGCCAGCTTGATGAATTGGCCGCTGAAACCGCCGCTGCTATGACTGCCAATCACCCCGATTATGCCTCGgttggtttttctccttttatttctttctttttctccattttgtcttaaata--cataggttaattgattatgggtggtcatttttgaaacttggttctgttt--

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|88574902|gb|CI666671.1|CI666671
EST:     CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCG                         CTCGCCGCGAGGATCGCGATCTCGAACCTGCACAAGACCACCATGAAGTCT
genomic: CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccct ... cactgtgaagCTCGCCGCGAGGATCGCGATCTCGAACCTGCACAAGACCACCATGAAGTCT
EST: gi|88576044|gb|CI670189.1|CI670189
EST:     CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCG                         CTCGCCGCGAGGATCGCGATCTCGAA
genomic: CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccct ... cactgtgaagCTCGCCGCGAGGATCGCGATCTCGAA
EST: gi|88569669|gb|CI660844.1|CI660844
EST:     CGGCGGAGACCGNCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCG                         CTCGCCGGGAGG
genomic: CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccct ... cactgtgaagCTCGCCGCGAGG
EST: gi|88569446|gb|CI660621.1|CI660621
EST:     CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCG                         CTCGCCGCGAGGATCGCGATCTCGA
genomic: CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccct ... cactgtgaagCTCGCCGCGAGGATCGCGATCTCGA
EST: gi|88330096|gb|CI652489.1|CI652489
EST:     CGGCGGAGACCGCCGNCGCCATGACCGCCTCCCACCCCGACTACGCCTCG                         CTCGCCGCGAGGATCGCGATCTCGAACCTGCA
genomic: CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccct ... cactgtgaagCTCGCCGCGAGGATCGCGATCTCGAACCTGCA
EST: gi|88324727|gb|CI653310.1|CI653310
EST:     CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCG                         CTCGCCGCGAGGATCGCGATCTCGAACCTGCANAAGACCACCATGAAGTC
genomic: CGGCGGAGACCGCCGCCGCCATGACCGCCTCCCACCCCGACTACGCCTCGgtaaggccct ... cactgtgaagCTCGCCGCGAGGATCGCGATCTCGAACCTGCACAAGACCACCATGAAGTC