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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATAGTCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacagaaacacgggtcaactcgaacagcgaatttaacctgtgctatactgattcaaacttacttttacgacag

Basic information

species Oryza sativa
transcript LOC_Os10g40030.6
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g40030.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G464885_T01 (Zea mays), 5'ss of exon 2
CCATAG-TCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacagaaacacgggtcaactcgaacagcgaatttaac---ctgtgctatactgattcaaacttacttttacgacag---------------------------------
 ||  | |  | || |||||| |||||||||||||||| | ||| || ||||| || |||||| | ||||||||||| ||| | ||||||| ||| |||||||||| ||  |  |          |||  |  |   | | ||   ||||   |  |      ||| | |   |       |                                 
-CACGGATTGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTAAGGAGATTCGCCTCCAATTTTGACTCTCTAAACTTGCCTCTCAGCATTCTCATgtaagtaccaatcctactacttcgtcgtgccactgctatcacgagctgtcaaaagccagcctaaaatcatagtagtatgtgtttggctggttgacttggtgttcttttcgacag

upper sequence: LOC_Os10g40030.4 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G128577_T01 (Zea mays), 5'ss of exon 2
CCATAGTCCATGTGCTGGAGATGGACCTCAGCTCCATGGATTCGGTGAGGAGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaa---cagaaacacgggtcaactcgaacagcgaatttaacctgtgctatactgattcaaacttacttttacgacag--------------------
| | | || | || |||||| |||||||||||||||| | ||| |||||||| || ||||||||||| |||||||| || || || |||||||| ||||||||||||   |  | | |    || | ||  |       |||    |||  |   |||||   || |||  |     | ||                    
CAAGAATCGACGTTCTGGAGCTGGACCTCAGCTCCATAGCTTCCGTGAGGAGATTCGCCTCCGAGTTCGACTCTCTCAAACTGCCCCTCAACATTCTCATgtaagaagggcgaacaaatctttctagtcttaggttttgtttggattgtcgttagctgata-gaatttagctagctaatagtatatgactgatattaattc
















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|58688731|gb|CK077418.1|CK077418
EST:     AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCAT                         CAATAACGCTGGAATCCTGTCCAATGACTGCATACGCTCCATTGACGGCCT
genomic: AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacag ... tttacgacagCAATAACGCTGGAATCCTGTCCAAGGACTGCATACGCTCCATTGACGGCCT
EST: gi|29656760|gb|CB653035.1|CB653035
EST:     AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCAT                         CAATAACGCTGGAATCCTGTCCAAGGACTGCATACGCTCCATTGACGGCCT
genomic: AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacag ... tttacgacagCAATAACGCTGGAATCCTGTCCAAGGACTGCATACGCTCCATTGACGGCCT
EST: gi|38471413|gb|CF955544.1|CF955544
EST:     AGGTTTGCCTCCGAGGTTGACTCTCTGAACCTACCTCTCAACATACTCAT                         CAATAACGCTGGAATCCTGTCCAAGGACTGCATACGCTCCATTGACGGCCT
genomic: AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacag ... tttacgacagCAATAACGCTGGAATCCTGTCCAAGGACTGCATACGCTCCATTGACGGCCT
EST: gi|86885823|gb|CI295944.1|CI295944
EST:     AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCAT                         CAATAACGCTGGAATCCTGTACAAGGACTGCATACGCTCCATT
genomic: AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacag ... tttacgacagCAATAACGCTGGAATCCTGTCCAAGGACTGCATACGCTCCATT
EST: gi|58593021|gb|CF991329.1|CF991329
EST:     AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCAT                         CAATAACGCTGG
genomic: AGGTTTGCCTCCGAGTTTGACTCTCTGAACCTACCTCTCAACATACTCATgtaagaacag ... tttacgacagCAATAACGCTGG