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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGTGTGGACTAGCTCACAAGACAATAATTTTTGTCCTAGAAGAGTTTGACCTCTTTGCTCAGgttgaaacaaatacatgcattctggtttaactatacttaattcatgctgaatgttagatgcatagaattgtagcacgtcatggtttatgggacatttgtcttacaggaatagcttgctttctacaattgctgctggcaattattagataacaggataacagatgattctatttatggtttcctattacag

Basic information

species Oryza sativa
transcript LOC_Os01g49010.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g49010.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM5G876520_T04 (Zea mays), 5'ss of exon 2
GGAGTGTGGACTAGCTCACAAGACAATAATTTTTGTCCTAGAAGAGTTTGACCTCTTTGCTCAGgttgaaacaaatac-----atgcatt------ctggtttaactatacttaattcatgctgaatgttagatgcatagaattgtagcacgtcatggtttatgggacatttgtcttacaggaatagcttgctttctacaattgctgctggcaattattagataacaggataacagatgattctatttatggtttcctattacag
|||||| ||||||||||||||||||||| | ||| | |||||||| || |||||||||||||||||  | | |  | |     |||| ||      ||| |||   | || | | ||     | | ||  || | | || | |      | | ||| ||| |||| |||| ||  | |  ||  | || |||||  ||| ||||||   | || || | | || | | ||| ||      || | || ||| | |  | ||||||
GGAGTGCGGACTAGCTCACAAGACAATACTATTTATTCTAGAAGAATTCGACCTCTTTGCTCAGgtcaagatagctgccctttatgctttaactaactgattttgttttattcacttttcattta-tggcagctacttaaattccagtaaagccattgttcatggcacatatga-tcaatggtgtggcatgctta-tactattgctatggtcagttttgacatgagaagattac------ttatgttcatgttgttttgttacag

upper sequence: LOC_Os01g49010.2 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA20G25850.1 (Glycine max), 5'ss of exon 8
GGAGTGTGGACTAGCTCACAAGACAATAATTTTTGTCCTAGAAGAGTTTGACCTCTTTGCTCAGgttgaaacaaatacatgcattctggtttaactatacttaattcatgctgaatgttagatgcatagaattgtagcacgtcatggtttatgggacatttgtcttacaggaatagcttgctttctacaattgctgctggcaattattagataacaggataacagatgattctatttatggtttcctattacag
||| |||||| |||| || || ||||||||||||||  | || ||||||||||| |||||||||||      ||       | ||||  ||  ||| |  | | |||      || | | |  |  || |||| | |    | || ||   |          ||||||   | |                                                                                
GGAATGTGGATTAGCACATAAAACAATAATTTTTGTTTTGGATGAGTTTGACCTGTTTGCTCAGgt------aaggctcctctttctttttccactttgatcatttc---tcaaaagcttgtggtgta-aattctgggttataattgtagttattctcaacctcttactctatt--------------------------------------------------------------------------------

upper sequence: LOC_Os01g49010.2 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv01s0011g04400.t01 (Vitis vinifera), 5'ss of exon 7
GGAGTGTGGACTAGCTCACAAGACAATAATTTTTGTCCTAGAAGAGTTTGACCTCTTTGCTCAGgttgaaacaaatacatgcattctggtttaactatacttaattcatgctgaatgttagatgcatagaattgtagcacgtcatggtttatgggacatttgtcttacaggaatagcttgctttctacaattgctgctggcaattattagataacaggataacagatgattctatttatggtttcctattacag
|||||||||| |||||||||||||||| ||||||||  | || ||||||||| ||||  ||||||     |  | ||| | |  |||  | |    | ||  |   ||     ||    |  || || |  || |  ||  |      || |  |||||  || ||||  |      ||| | | | ||                                                                 
GGAGTGTGGATTAGCTCACAAGACAATCATTTTTGTATTGGATGAGTTTGACTTCTTCACTCAGGC----AAGATTACCT-CTCTCTCATgtgtgcacacaca---caaaagaaaacccatgtggatcggtttttgacattt---aaattctcagacataggtattaccagttccctttgttctttgcag----------------------------------------------------------------

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|218491615|gb|FG954647.1|FG954647
EST:     CTCACAAGACAATAATTTTTGTCCTAGAAGAGTTTGACCTCTTTGCTCAG                         GGGAAGCAGAGGTTACTCTATAGCTTACTTGATGCAATGCAATCTCTCACC
genomic: CTCACAAGACAATAATTTTTGTCCTAGAAGAGTTTGACCTCTTTGCTCAGgttgaaacaa ... cctattacagGGGAAGCAGAGGTTACTCTATAGCTTACTTGATGCAATGCAATCTCTCACC