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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactggaattataatatacgcatttaacttcatagtataatagaaatatctttgggttgatgattgctcatttttaactttgctttcatgtgatttctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGCTGTTCATAGTTCTAGGAATAAAGCCTAGCACGCCTTTGGAAACGGAATG

Basic information

species Oryza sativa
transcript LOC_Os07g47290.3
intron # 18
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G005493_T01 (Zea mays), 3'ss of exon 20
gtaactggaattataa-tatacgcatttaacttcatagtataatag-aaatatctttgggttgatgattgctcatttttaactttgctttcatgtgatttctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGCTGTTCATAGTTCTAGGAATAAAGCCTAGCAC---GCCTTTGGAAACGGAATG
             ||| |  |||| | || |   |    | ||||  ||||| |  ||   || |||| ||  ||     |   | | | |  ||| ||||   || ||||||||||| ||||||||||||||  ||||||||||||||| ||| ||    |     ||| ||  |||||||   | |||||   ||||  |    |  ||  
------------gtaactccacgcgtatagcagta-gcaacaataacaaatacccgtg---tgctgatcgcatat-----atcattcatgcg-gtgctttcctgatgcagGAACTGGCGGAGATTCTGTTCCACTCTGCTCTATAGATGGCGCCATGTCCGTAGCGGTAGCTCCTGGAATAAG--CAAGCACTGAGCCTGCGCCCTCCCAAC-

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G427620_T01 (Zea mays), 3'ss of exon 10
--------gtaactggaattataatatacgcatttaacttcatagtataatagaaat----atctttgggttgatgattgctcatttttaactttgctttcatgtgatttctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGCTGTTCATAGTTCTAGGAATAAAGCCTAGCACGCCTTTGGAAACGGAATG
        |    || |  |   |   | |||  |   || | ||| ||   |   |    | || || | ||||| ||||| |||   |  | ||   | |||||           ||||||||||| ||||||||||||||| |||| |||||||||||||| ||        ||||| || | ||||||   | ||                     
gtgagcccgctgttgcatctggcaagcaggcaaatgtattgacagtctaggcgtcctctccacctgtgcgctgatggttgctgatt---aggtatgtcatgatgtg-----------cagGAACTGGCGGAGATTCTGTTCCAATCTGCCCTATAGATGGTGCCATGA------CCATAGCTCCAAGAATAAGCACAAGG--------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G313536_T01 (Zea mays), 3'ss of exon 14
--------gtaactggaattataatatacgcatttaacttcatagtataatagaaat----atctttgggttgatgattgctcatttttaactttgctttcatgtgatttctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGCTGTTCATAGTTCTAGGAATAAAGCCTAGCACGCCTTTGGAAACGGAATG
        |    || |      |   | |||  |   || | ||| ||   |   |    | || || | ||||| ||||| |||   |  | ||   | |||||           ||||||||||| ||||||||||||||| |||| |||||||||||||| ||        ||||| || | ||||||   | ||                     
gtgagcccgctgttgcatccggcaagcaggcaaatgtattgacagtctaggcgtcctctccacctgtgcgctgatggttgctgatt---aggtatgtcatgatgtg-----------cagGAACTGGCGGAGATTCTGTTCCAATCTGCCCTATAGATGGTGCCATGA------CCATAGCTCCAAGAATAAGCACAAGG--------------------

upper sequence: LOC_Os07g47290.3 (Oryza sativa), 3'ss of exon 18
lower sequence: GRMZM2G081682_T01 (Zea mays), 3'ss of exon 20
gtaactggaattataatatacgcatttaacttcatagtataatagaaatatctttgggttgatgattgctcatttttaactttgctttcatgtgatttctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGCTGTTCATAGTTCTAGGAATAAAGCCTAGCACGCCTTT----GGAAACGGAATG
                || | |  || |   ||   |  |  |      | | ||| | ||||| ||||| |||   |  | ||   | ||||| |||| |  | ||||||||||| ||||||||||||||  |||| ||||||||| ||  |      ||| ||||| || ||||||||      |  |||| |     | | ||| | | 
---------------gtaaatgtgttgacagtctaggcgtcctctc--caccattgcgctgatggttgcttatt---aggtatgtcatgatgtgctttc-ctgtgcagGAACTGGCGGAGATTCTGTTCCAGTCTGCCCTATAGATGATGGTGCCA---TGTCCATAGGTCCAGGAATAAGCAAGGGTGCGCCCTCCTCCGAACACGCACT-

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|88518358|gb|CI446012.1|CI446012
EST:     AGAAGAANGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGGTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|15854754|gb|BI807566.1|BI807566
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCCTTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88540647|gb|CI468708.1|CI468708
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88974071|gb|CI002733.1|CI002733
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|89179716|gb|CI043995.1|CI043995
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|38476165|gb|CF960298.1|CF960298
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88321906|gb|CI673054.1|CI673054
EST:     GGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: GGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|89194258|gb|CI116695.1|CI116695
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88828748|gb|CI073618.1|CI073618
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88514668|gb|CI442174.1|CI442174
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|29688817|gb|CB685092.1|CB685092
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|163927225|gb|EG710263.1|EG710263
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCT
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCT
EST: gi|88985909|gb|CI033238.1|CI033238
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88506732|gb|CI434238.1|CI434238
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGGTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCNTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|12622806|gb|AU173019.1|AU173019
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|218483389|gb|FG947207.1|FG947207
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88840977|gb|CI000939.1|CI000939
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|58031342|gb|CX728885.1|CX728885
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTTTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88537783|gb|CI466758.1|CI466758
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88475673|gb|CI412944.1|CI412944
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|66925796|gb|CX112644.1|CX112644
EST:     GGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: GGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88995441|gb|CI022764.1|CI022764
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88437040|gb|CI523990.1|CI523990
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88535496|gb|CI464300.1|CI464300
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|313080767|gb|HO213564.1|HO213564
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC
EST: gi|88504210|gb|CI431716.1|CI431716
EST:     AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAG                         GAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCAGTGGTGC
genomic: AGAAGAAGGTTCTGGAGTGGGGTGAACCCATTGTTCCATCTGGCAAGCAGgtaactggaa ... ctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgggttgatgattgctcatttttaactttgctttcatgtgatttctcaatacagGAACTGGCTGAGATTCTGTTCCAAGCTGCTCTATAGATGGTGCCGTGGTGCTGTTCATAGTTCTAGGAATAAAGCCTAGCACGCCTTTGGAAACGGAATG
                    ttttaac  putative branch site (score: 2)
                                          tttctc  putative PPT
                tcatttttaacttt  TA-rich tract