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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATGGACCACCTGGAACTGGGAAGACACTCGTTGCCCATGCATTTGCTTCCCAGACAAATGCAACATTTCTTAAGCTAACTGGTCCACAACTTGCCGTGgtaattatcttgcaacagaaaatccatcacctaactgtcagtaaaatattgttgtgctattcatgaaatcaggtgtgcgtatattctgtatctttctcat...

Basic information

species Oryza sativa
transcript LOC_Os04g21660.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g21660.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G027282_T01 (Zea mays), 5'ss of exon 5
GTATGGACCACCTGGAACTGGGAAGACACTCGTTGCCCATGCATTTGCTTCCCAGACAAATGCAACATTTCTTAAGCTAACTGGTCCACAACTTGCCGTGgtaattatcttgcaacagaaaatccatcacctaactgtcagtaaaatattgttgtgctattcatgaaatcaggtgtgcgt---atattctgtatctttctcat-
||||||||| ||||| |||||||| || ||| | || | |||||  ||| | |||||||||||||||||||| ||  |  ||||||||||||||| |  ||||  ||  |     |   ||||  || |   |  ||  ||       |  |   ||| | ||   || ||  || || |   | ||||||| | |   |    
GTATGGACCCCCTGGGACTGGGAAAACGCTCATGGCTCGTGCATGCGCTGCACAGACAAATGCAACATTTCTGAAATTGGCTGGTCCACAACTTGTCCAGgtaggtaattaaatccgtgaaatatattatacagatgctagggt----tcctaaggctctccaactaaccatttgagcattttacattctgtttgtgatttgcg

upper sequence: LOC_Os04g21660.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv05s0020g01180.t01 (Vitis vinifera), 5'ss of exon 6
GTATGGACCACCTGGAACTGGGAAGACACTCGTTGCCCATGCATTTGCTTCCCAGACAAATGCAACATTTCTTAAGCTAACTGGTCCACAACTTGCCGTGgtaattatcttgcaacagaaaatccatcacc-taactgtcagtaaaatattgttgtgctattcatgaaatcaggtgtgcgtatattctgtatctttctcat
|||||| || || || ||||| || ||| |  | || | ||| | |||| | ||||||||||| || ||||| |||||| ||||||||||||||| |  ||| | | ||   ||  | || |||   || | | |  ||  ||       |||| |   |||  |   || |  |     |  |   |   |  | |  | 
GTATGGGCCTCCAGGGACTGGCAAAACATTAATGGCTCGTGCTTGTGCTGCACAGACAAATGCCACTTTTCTGAAGCTAGCTGGTCCACAACTTGTCCAGgtcagtgtccaacatgaaaatatcttacagcatgatcgtgtgtgtgtgtgtgttttaa-atttctttgatgattttcaaattgagcattggtaatccagag
















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|33381485|gb|CF196828.1|CF196828
EST:     CCCAGACAAATGCAACATTTCTTAAGCTAACTGGTCCACAACTTGCCGTG                         AAGCTTATTGGTGAGGGAGCAAGACTTGTTCGTGATGCCTTTCAGCTTGCT
genomic: CCCAGACAAATGCAACATTTCTTAAGCTAACTGGTCCACAACTTGCCGTGgtaattatct ... actcgtgcagAAGCTTATTGGTGAGGGAGCAAGACTTGTTCGTGATGCCTTTCAGCTTGCT