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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTTGTACGAGAAGGGGGAGAAGTTCTACCTCTACACGGGGAGGGGGCCCTCGTCGGAGGCGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAAgtaagcgcgattgttccaatctgcaatactcgctgtcccctgcaatgttcttgattcactcgtgttgttgtataaataactgggcaatgccgcggcagta...

Basic information

species Oryza sativa
transcript LOC_Os12g35570.3
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g35570.3 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G002687_T01 (Zea mays), 5'ss of exon 2
ATTTGTACGAGAAGGGGGAGAAGTTCTACCTCTACACGGGGAGGGGGCCCTCGTCGGAGGCGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAAgtaagcgcgattgttccaatctgcaatactcgctgtcccctgcaatgttcttgattcactcgtgttgttgtataaata-actgggcaatgccgcggcagta-
||||||| ||||| ||| ||||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||||||||||||||||||| |||||||    ||   ||   | || ||     |     | |  || | || |  |  ||   ||      | ||   |  ||   | || |      ||    
ATTTGTATGAGAACGGGCAGAAGTTCTACCTCTACACGGGGAGGGGGCCCTCGTCGGAGGCCCTGCACCTCGGCCACCTCATCCCCTTCATGTTCACAAAgtaagtagtatgtctcggttatgaaagttgggtacgactcctcagttttttcca--catcggtaaaaccgaatttctttaccatgtaacgaaattacaaggt

upper sequence: LOC_Os12g35570.3 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ24416 (Selaginella moellendorffii), 5'ss of exon 2
ATTTGTACGAGAAGGGGGAGAAGTTCTACCTCTACACGGGGAGGGGGCCCTCGTCGGAGGCGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAAgtaagcg-cgattgttccaatctgcaatac--tcgctgtcccctgcaatgttcttgattcactcgtgttgttgtataaataactgggcaatgccgcggcagta
|||  ||||||||||| |||||||| |||||||| || ||  | ||||| ||||| || || || || ||||||||| | || || ||||||||||| ||||| | | ||    ||   || |    | |  ||||| ||  ||| |                                                        
ATTCTTACGAGAAGGGAGAGAAGTTTTACCTCTATACTGGACGAGGGCCATCGTCAGAAGCTCTTCATCTCGGCCATTTGATACCATTCATGTTCACAAAgtaggtgtcggcattttttatttttttttccatcgctttcttctgtag-------------------------------------------------------

upper sequence: LOC_Os12g35570.3 (Oryza sativa), 5'ss of exon 2
lower sequence: EFJ23832 (Selaginella moellendorffii), 5'ss of exon 2
ATTTGTACGAGAAGGGGGAGAAGTTCTACCTCTACACGGGGAGGGGGCCCTCGTCGGAGGCGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAAgtaagcgcgattgttccaatctgcaatac-tcgctgtcccctgcaatgttcttgattcactcgtgttgttgtataaataactgggcaatgccgcggcagta
|||  ||||||||||| |||||||| |||||||| || ||  | ||||| ||||| || || || || ||||||||| | || || ||||||||||| ||||| | |      ||    | |    | | |||||  |  ||| |                                                        
ATTCTTACGAGAAGGGAGAGAAGTTTTACCTCTATACTGGACGAGGGCCATCGTCAGAAGCTCTTCATCTCGGCCATTTGATACCATTCATGTTCACAAAgtaggtgtcggcattttttttttttttccatcgcttgcttctgtag-------------------------------------------------------

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|3107892|gb|D42636.1|D42636
EST:     CGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAA                         ATATCTGCAGGAT-CTTTCAAGGTGCCCCTAGTAATACAGCTAACTGATGA
genomic: CGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAAgtaagcgcga ... cccttttcagATATCTGCAGGATGCTTTCAAGGTGCCCCTAGTAATACAGCTAACTGATGA
EST: gi|117242702|gb|CT843523.1|CT843523
EST:     TCGTCGGAGGCGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAA                         ATATCTGCAGGATGCTTTCAAGGTGCCCCTAGTAATACAGCTAACTGATGA
genomic: TCGTCGGAGGCGCTGCACCTCGGCCATCTCATCCCCTTCATGTTCACCAAgtaagcgcga ... cccttttcagATATCTGCAGGATGCTTTCAAGGTGCCCCTAGTAATACAGCTAACTGATGA