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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcatatcatactgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag

Basic information

species Oryza sativa
transcript LOC_Os02g54340.2
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G181359_T01 (Zea mays), 5'ss of exon 8
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcatatcatactgtgtagctatttatc-------tttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag
| || || |||||||| |||||||| ||||||||||| || ||||| || |||||||||||||| || || |||||||| ||||| |||||||| || |||||||  || |  | |  |    || ||| ||       |  | |    |  ||||| | |   | | | | |            |   |     | ||                   
GTGGCGACAATGAGGTGCAGCGTACAATGTTGGAAATAGTAAACCAGCTTGATGGGTTTGATGCAAGAGGGAACATCAAAGTTCTCATGGCCACTAATAGgtattttatttttttcccttctactctttctcatgtggttccagatccttttatgtgcttacctcgagctctattctgaagctattatcagaagaaacat------------------

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA07G05220.1 (Glycine max), 5'ss of exon 8
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcatatcatactgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag
| ||||| |||||||||||||| |||||| | ||||||||||| || || ||||||||||||||  ||||||||||||| ||| ||||||| || || |||| | |   ||  || ||||     || | |||  ||   |  |  | | | ||  |  || |   |||    |  ||       ||  | |  |  | || | |||| ||
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAATAGgt-tggttgattttattgtgagagcatgtctctgcaa---tgcgagtctttccataatgat-gatgcattccaaatgcc------ctttcaaattcattttttcttgtaag

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G42370.2 (Glycine max), 5'ss of exon 8
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcatatcatactgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag
| |||||||||||||||||||| || ||| | ||||||||||| || || ||||||||||||||  | ||||||||||| ||  ||||||| || ||||||| ||      |  | |  |    ||| |   ||| | | |  |    |  ||||   | |  |  ||   ||  ||   ||||  | | | || |||  |   |     |
GTGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgtttt------ctgatttggctattatatgattttca-ctttagttcatactcag---ttttactgcagatgttaagtcaagaaagt-atctcactttagttcatcaagtg

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA16G01810.1 (Glycine max), 5'ss of exon 8
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcatatcatactgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag
| ||||| |||||||||||||| |||||| | ||||||||||| || || ||||||||||||||  ||||||||||||| ||| ||||||| || ||||||| | |   ||  ||   || |   ||   ||| |||   ||  | ||    |||   |  |   |      |  |    | | ||       |  |||   ||| |    
GTGGTGACAATGAGGTTCAGCGCACCATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGGGGAAACATCAAAGTTTTGATGGCAACTAACAGgt-tggttgattttataatgaaagcat--gtctctaacagtcaacgtg---ccagttttgccataattatgatgcattcaaaatgccc-ttttaaattcaattttcg----

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA19G45140.1 (Glycine max), 5'ss of exon 8
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcatatcatactgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag
| |||||||||||||||||||| || ||| | ||||||||||| || || ||||||||||||||  | ||||||||||| ||  ||||||| || ||||||| ||    ||    || | ||  |  | || ||   || |  |    |  ||||   ||   | | |||   |  | | ||     ||    || | |  |  |      
GCGGTGATAATGAGGTTCAGCGCACTATGCTTGAAATTGTGAATCAGCTTGATGGGTTTGATGCTCGTGGAAACATCAAAGTCTTGATGGCAACTAACAGgttttctg-atttggctat-tatatgatgattttc--actttagttcatactcagttttactac-agatgttcactgttaagtcaa-gaaagtatctccaagcatg-----

upper sequence: LOC_Os02g54340.2 (Oryza sativa), 5'ss of exon 8
lower sequence: Vv09s0002g00170.t01 (Vitis vinifera), 5'ss of exon 8
GGGGTGATAATGAGGTTCAGCGTACCATGTTGGAAATTGTGAACCAACTCGATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgt--attgcatatcat-actgtgtagctatttatctttaaacatctgcatgtgttcaggactatcgccacatgagtagagctgagaagctgaccacattttcttgttttgtcag
| || || |||||||| |||||||||||| | || ||||| || || || ||||||||||||||  | ||||| ||||| ||||| ||||| ||||| ||||   |||  || | | | ||  |   | | | | ||       || |   ||||    |   | |         |    ||   ||    |    |   |             
GTGGGGACAATGAGGTCCAGCGTACCATGCTTGAGATTGTAAATCAGCTTGATGGGTTTGATGCTCGAGGAAATATCAAAGTTCTAATGGCAACAAATAGgttagttggctaccttcattggattattgtctgtgttgctgtg-ctaccactgttagaaatggttgttggggttatttttctagtaatgcaatatgacaat-------------

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|87006868|gb|CI285902.1|CI285902
EST:     GATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAG                         GCCTGATACCTTAGATCCTGCACTTCTACGTCCTGGTCGTTTGGACAGGAA
genomic: GATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcata ... gttttgtcagGCCTGATACCTTAGATCCTGCACTTCTACGTCCTGGTCGTTTGGACAGGAA
EST: gi|58654487|gb|CK043167.1|CK043167
EST:     GATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAG                         GCCTGATACCTTAGATCCTGCACTTCTACGTCCTGGTCGTTTGGACAGGAA
genomic: GATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcata ... gttttgtcagGCCTGATACCTTAGATCCTGCACTTCTACGTCCTGGTCGTTTGGACAGGAA
EST: gi|8857968|gb|AU095286.1|AU095286
EST:     GATGGGTTTGATGCGAAGGGAA-CATCAAGGTTCTGATGGCCACCAACAA                         GCCTGAAACCTTAGATC-TGCACTTCTACGTCCTGGTCGTTTG
genomic: GATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcata ... gttttgtcagGCCTGATACCTTAGATCCTGCACTTCTACGTCCTGGTCGTTTG
EST: gi|29684845|gb|CB681120.1|CB681120
EST:     GATGGGTTTGATGCGAGGGGAAACATCAAGGTTTTGATGGCCACAAACAG                         GCCTGATACCTTAGATCCTGCACTTTTACGTCCTGGTCGTTTGGACAGGAA
genomic: GATGGGTTTGATGCGAGGGGAAACATCAAGGTTCTGATGGCCACAAACAGgtattgcata ... gttttgtcagGCCTGATACCTTAGATCCTGCACTTCTACGTCCTGGTCGTTTGGACAGGAA