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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCGGCTGACTATATTGGCATCAACCAATACACAGCTAGCTACATGAAGGGCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatgtttgtgagttccttgcctcgcctcgccttgcgcttgtacatcagtatcgttgctagacatattctcctaaatattttatcccctaaattctgcag

Basic information

species Oryza sativa
transcript LOC_Os03g49600.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49600.3 (Oryza sativa), 5'ss of exon 8
lower sequence: AC217401.3_FGT001 (Zea mays), 5'ss of exon 8
CTCGGCTGACTATATTGGCATCAACCAATACACAGCTAGCTACATGAAGGGCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatgtttgtgagttccttgcctcgcctcgccttgcgcttgtacatcagtatcgttgctagacatattctcctaaatattttatcccctaaattctgcag
             ||||| ||||| |||||||| ||||||||| ||||||||||| || || | |||||||  || || || |||||||| ||||||||||||   ||||||||||||||| ||||||    | | ||   |||| ||| | |||        |||| |  |  | |   ||  ||| ||||||||||| |||||
-------------ATTGGGATCAATCAATACACCGCTAGCTACGTGAAGGGCCAGAAACTGCTCCAGCAGAAGCCTACTAGCTACTCAGCTGATTGGCAGGTTCAATATGTTTgtgagttc-ttgcct----tagactcaagctt-tacctgagt-------ttagatacttcttgcctgatcatttgtcccctaaattatgcag
















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|29638181|gb|CB643190.1|CB643190
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29638181|gb|CB643190.1|CB643190
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29638181|gb|CB643190.1|CB643190
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29638181|gb|CB643190.1|CB643190
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|88996445|gb|CI259949.1|CI259949
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|88996445|gb|CI259949.1|CI259949
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|88996445|gb|CI259949.1|CI259949
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|88996445|gb|CI259949.1|CI259949
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667383|gb|CB663658.1|CB663658
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667383|gb|CB663658.1|CB663658
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667383|gb|CB663658.1|CB663658
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667383|gb|CB663658.1|CB663658
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29672037|gb|CB668312.1|CB668312
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29672037|gb|CB668312.1|CB668312
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29672037|gb|CB668312.1|CB668312
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29672037|gb|CB668312.1|CB668312
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|27576307|gb|CA999001.1|CA999001
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAG                         G
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatg ... aattctgcag-
EST: gi|27576307|gb|CA999001.1|CA999001
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAG                         G
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatg ... aattctgcag-
EST: gi|29667349|gb|CB663624.1|CB663624
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667349|gb|CB663624.1|CB663624
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667349|gb|CB663624.1|CB663624
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29667349|gb|CB663624.1|CB663624
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|27577942|gb|CB000637.1|CB000637
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAG                         G
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatg ... aattctgcag-
EST: gi|27577942|gb|CB000637.1|CB000637
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAG                         G
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatg ... aattctgcag-
EST: gi|29678658|gb|CB674933.1|CB674933
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29678658|gb|CB674933.1|CB674933
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29678658|gb|CB674933.1|CB674933
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29678658|gb|CB674933.1|CB674933
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29659818|gb|CB656093.1|CB656093
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAG                         G
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatg ... aattctgcag-
EST: gi|29659818|gb|CB656093.1|CB656093
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAG                         G
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGgttacctatg ... aattctgcag-
EST: gi|29657771|gb|CB654046.1|CB654046
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29657771|gb|CB654046.1|CB654046
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29657771|gb|CB654046.1|CB654046
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a
EST: gi|29657771|gb|CB654046.1|CB654046
EST:     GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATTGGCAGGTTACCTATG                
genomic: GCCAGCAATTGATGCAGCAGACACCGACGAGTTACTCAGCCGATT----GG----C-A-Ggttacctatg ... a