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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAGCTCAGGCAGCATCCCTGTTAATACTGGGGCCTTTTGTGGACTTCTGGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACGgtatgtgattcttgttttgaatcagttctctgcttattctcttgtgaacttgttgcattacagtcccatttggctctatgcagctatttcggcattataa...

Basic information

species Oryza sativa
transcript LOC_Os02g40090.4
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM5G823629_T03 (Zea mays), 5'ss of exon 5
TCCAGCTCAGGCAGCATCCCTGTTAATACTGGGGCCTTTTGTGGACTTCTGGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACGgtatgtgattcttgttttgaatcagttctctgcttat-tctcttgtgaacttgttgcattacagt----cccatttggctctatgcagctatttcggcattataa
|||||| |||||||||||  |||||||| |||||||||||||||||||||||||||| || | |||||||||| |||| || |||||| |||||||||||||||||||| |||||| | |||||  | | || |||| ||| |||  || |  |  ||    ||     ||||| ||  ||  |  || || ||  ||| |    
TCCAGCGCAGGCAGCATCATTGTTAATAGTGGGGCCTTTTGTGGACTTCTGGCTGACTAACAAAAGAGTTGATGCTTTTAACTACACATCAATAGTTACGgtatgtgatacttgttctcaatca--tttatgtttatgtcttttgcaaaatcctcacaaggaagaggaacccatctgtttcactcaagttagtttagcactg---

upper sequence: LOC_Os02g40090.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G089630_T01 (Zea mays), 5'ss of exon 6
TCCAGCTCAGGCAGCATCCCTGTTAATACTGGGGCCTTTTGTGGACTTCTGGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACGgtatgtgattcttgttttgaatcagttctctgcttattctcttgtgaacttgttgcattacagt----cccatttggctctatgcagctatttcggcattataa-
|||||| |||||||||||  ||||| || |||| |||||||||||||||||||||||||| | |||||| ||| |||| || |||||| ||||||||||||||||| || ||  || |||||||  | | ||||   ||| |||  || | ||  |     ||     ||  | ||  ||  |  ||||| || |||||| |   
TCCAGCCCAGGCAGCATCGTTGTTAGTATTGGGTCCTTTTGTGGACTTCTGGCTGACCAACAAAAGAGTCGATGCTTTTAACTACACATCAATAGTTACGgtatgtcatact-attctgaatca--tttatgctg--tcttttgcaaaatcgtcacgaggaagaggaacctgtctgtttcactcaagctagtttggcattgtcta
















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|29639689|gb|CB644698.1|CB644698
EST:     GGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACG                         TTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
genomic: GGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACGgtatgtgatt ... taatttccagTTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
EST: gi|88965552|gb|CI011719.1|CI011719
EST:     ATACTTTCAATTACACAACAATAGTTACG                         TTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
genomic: ATACTTTCAATTACACAACAATAGTTACGgtatgtgatt ... taatttccagTTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
EST: gi|29639690|gb|CB644699.1|CB644699
EST:     GGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACG                         TTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
genomic: GGCTGACCAATAGAAGAGTTGATACTTTCAATTACACAACAATAGTTACGgtatgtgatt ... taatttccagTTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
EST: gi|88228513|gb|CI227993.1|CI227993
EST:     AACAATAGTTACG                         TTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG
genomic: AACAATAGTTACGgtatgtgatt ... taatttccagTTCTTCATTGTATTGTCGTGCACAATTGCTGTTGGGACCAATCTAAGCCAG