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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCCCAAGCAAATTCAGCTCCTGGAAATAGTGCCAATGCGAAGCCACGTACAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttcttttataagatcagttcactttgaaacaaatcaaactgttgcataataatcgattattttttttaatttgtgtgcacccatggtcttaaatataatttctcattgtgctgcag

Basic information

species Oryza sativa
transcript LOC_Os06g09370.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g09370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G116785_T01 (Zea mays), 5'ss of exon 3
---ACCCCAAGCAAATTCAGCTCCTGGAAATAGTGCCAATGCGAAGCCACGTACAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttcttt---tataagatcagttcactttgaaacaaatcaaactgttgcataataatc---gattattttttttaatt---tgtgtgcacccatggtcttaaatataatttctcattgtgctgcag
   | | ||| |||||||||||  |   ||| |||    || ||| |||||   ||||||||| |||||||| |||||||||||||| |||||||||||||||||||| | |||   ||| |||||||| |||||     ||||   ||  ||||||||||  |     ||| ||| |||   ||   | | || |  |      || | |||||||||  | | ||||||||
ACAAACTCAACCAAATTCAGCTGTT---AATGGTGTTGGTGTGAAACCACGAGTAAGGGCTCGTCGTGGACAAGCAACTGATCCTCATAGTATTGCTGAACGGgtgaggtttttatttatgagatcagtccacttgagggcaaactgaagagttgcataatgtttttgaattgtttgtttcgcttgcttttatgaaggctaaagtttgactataatttcctaatctgctgcag

upper sequence: LOC_Os06g09370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G024530_T01 (Zea mays), 5'ss of exon 5
---ACCCCAAGCAAATTCAGCTCCTGGAAATAGTGCCAATGCGAAGCCACGTACAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt--ttataagatcagttcactttgaaacaaatcaaactgttgcataataatc--gattattttttttaatttg---tgtgcacccatggtcttaaatataatttctcattgtgctgcag
   |  |||| ||||||| |    ||||||| |||    || |||||||||   ||||||||| ||||||||||||||||||||||| || ||||||||||| ||||||| ||  ||||  ||||||| ||| |     ||||   ||  ||| ||||||| |   || |  ||| |||   |||   | || | | ||    || | || ||||||  ||  || |||||
ACAAATCCAACCAAATTCTG---TTGGAAATGGTGTTGGTGTGAAGCCACGAGTAAGGGCTCGTCGTGGACAGGCAACTGATCCTCATAGCATTGCTGAACGAgtgagtttttctttatgtgatcagtccacctcagtgcaaacagaagagttacataatatttttgaattatttgtttggcttgcattatgtatc-ataagtttgactacaatttcatat-atgttgcag

upper sequence: LOC_Os06g09370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv11s0016g00380.t01 (Vitis vinifera), 5'ss of exon 3
ACCCCAAGCAAATTCAGCTCCTGGAAA---TAGTGCCAATGCGAAGCCACGTACAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttct----tttataagatca----------gttcactttgaaacaaatcaaactgttgcata------ataatcgattattttttttaatttgtgtgcacccatggtcttaaatataatttctcattgtgctgcag---------------------------------------
       | |  | | ||| ||||      || ||  | ||  ||||| |||  ||||||||| || || ||||| |||||||||||||||||||||||| |||| |||| |    ||| || |||||          ||||    ||       | |  |  |  ||||      | |    ||||   |||  | ||    || |   |  | |||  ||| |   | ||  || | |  |                                        
---TACGGTAGGTACTGCTTCTGGTGGCTGTAATGGAACTGGAAAGCCGCGTGTAAGGGCTCGTCGAGGCCAGGCCACTGATCCTCACAGTATTGCTGAAAGGgttagttgtaaattttgtatgatcatctgaaacaagttcttcatgttgtttgttattcactctcatatctaagacacatcattagactttgaagttgacatgtaaaaaatggctttgataaagactttc-ctgggttataatctcttttgttgtccctttgaaaaatatctatgatgcag

upper sequence: LOC_Os06g09370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S173_83V6.1 (Physcomitrella patens), 5'ss of exon 2
---ACCCCAAGCAAATTCAGCTCCTGGAAATAGTGCCAATGCGAAGCCACGTACAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgt--gagttcttttataagatcagttcactttgaaacaaatcaaactgttgcataataatcgattattttttttaatttgtgtgcacccatggtcttaaatataatttctcattgtgctgcag
   |   |  |||    |||   ||     | ||      || |  |||||     | || || ||||| || || |||||||||||||| ||||||||||||||  || |  |  |      |  || | || |||      |    |||| |||     |  |  || |||  |||    | |  | | ||||||   || | ||  ||               
AGGAGTTCCGGCAGGA-CAGTCGCTCCC--TGGTATGGGGGCTAGACCACGAGTGCGAGCACGTCGTGGTCAAGCTACTGATCCTCACAGCATTGCTGAACGGgtatgaatagtccttggttgttggtcctctctgatttgt-ttgggctgtggca-----actgtgtagtttcattagcgggaggcctctcatggt---aattctacattt--------------

upper sequence: LOC_Os06g09370.2 (Oryza sativa), 5'ss of exon 6
lower sequence: PP1S209_22V6.2 (Physcomitrella patens), 5'ss of exon 2
------ACCCCAAGCAAATTCAGCTCCTGGAAATAGTGCCAATGCGAAGCCACGTACAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttcttttataagatcagttcactttgaaacaaatcaaactgttgcataataatcgattattttttttaatttgtgtgcacccatggtcttaaatataatttctcattgtgctgcag
       |||   | | |  ||   ||||| | ||| |     || |  |||||     | || || ||||| || ||||||||||| ||||||||||||||||||||  |    ||  |  |||   ||  ||||        ||  |   ||  | ||| | |     || |     | |||  ||   | ||| |   |   |  || ||   || || |    
AGGTGTCCCCTCGGGACAGCCACTGCCTGGCA-TAGGG-----GCTAGACCACGAGTGCGAGCACGTCGTGGTCAAGCAACTGATCCGCACAGTATTGCTGAACGGgtatgagtattctt--gatttattgtcttt--------tctgatgtttttaaaattacc-----ttctcagggagttgcatg--gcgatgataggaggcactatgtcgatttatgat----

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|87012724|gb|CI295168.1|CI295168
EST:     AAGGGCTCGCCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: AAGGGCTCG-CCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
EST: gi|88980643|gb|CI026705.1|CI026705
EST:     CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
EST: gi|218483231|gb|FG956163.1|FG956163
EST:     CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
EST: gi|86498321|gb|CI140954.1|CI140954
EST:     CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
EST: gi|5039098|gb|AU071208.1|AU071208
EST:     CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCG-CGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
EST: gi|218482847|gb|FG953463.1|FG953463
EST:     CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
EST: gi|58603374|gb|CK013902.1|CK013902
EST:     CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGG                         CTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC
genomic: CAAGGGCTCGCCGTGGACAGGCAACTGATCCTCACAGTATTGCTGAACGGgtgagttctt ... tgtgctgcagCTTCGCCGAGAGAAAATTTCAGAAAGGATGAAAAATCTCCAAGTCCTTGTC