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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtatacaattcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag

Basic information

species Oryza sativa
transcript LOC_Os12g06335.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G031656_T01 (Zea mays), 5'ss of exon 7
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtataca-attcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
|||||||||||| || ||||| |||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||| || || ||||| ||||| | || || | ||| | |||     | ||            ||  ||||||| | ||  |  ||  | ||  ||| | ||||| |||   |         || | | ||||   |||||
TAGCATTGATGCCTTGTTGGAGAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACAAAGCATGCAGATAACCTCAAGGACTCAAATGAATCTAAGgtgtccacatacttattaatttt----gccat----------ttaatttgcagcctttttgagaaggcaata--gttactaacctcatgcagt---------atggataaactccaaacag

upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G031656_T02 (Zea mays), 5'ss of exon 8
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtataca-attcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
   ||||||||| || ||||| |||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||| || || ||||| ||||| | || || | ||| | |||     | ||            ||  ||||||| | ||  |  ||  | ||  ||| | ||||| |||   |         || | | ||||   |||||
---CATTGATGCCTTGTTGGAGAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACAAAGCATGCAGATAACCTCAAGGACTCAAATGAATCTAAGgtgtccacatacttattaatttt----gccat----------ttaatttgcagcctttttgagaaggcaata--gttactaacctcatgcagt---------atggataaactccaaacag

upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G069408_T01 (Zea mays), 5'ss of exon 7
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtatacaattcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
||| |||||||||||| |||| |||||||||||||||||| ||||||||||||||||||| ||||||||||| ||||||||||| || ||| ||||  | |||| ||        || ||  ||   |    ||  |    ||   |  ||| ||||  || | | ||  |    ||        | | |   |   |||  ||  |   |         
TAGTATTGATGCATTACTGGAGAAGACCATTAAGCACATGCTTTTCTTGCAAAGTGTGACAAAGCATGCAGATAACCTCAAGGACTCAAACAAATCTGATgtatgcatg------cacttattaattttgtcatctactccctccgtcccaggatat--aaggcgtaaccacctctg---gttcaaagaccaagaaatgcatttaattgtc---------

upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 8
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtatacaattcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
|||||| |||||| |  ||||||||||||| ||||| ||| ||||| |||||||||| || |||||||| ||||| || ||  |  |    || || |||||||| |  || | |  |  | |  |    ||    |    |   |        || | |          ||||||   |   | |   |     |||| |                   
TAGCATAGATGCACTTCTGGAAAAGACCATCAAGCATATGCTTTTCCTGCAAAGTGTAACAAAGCATGCTGACAAGCTGAAACAGACAGGGGAGTCTAAGgtatagacatcatcttgtgctttttctcagcatctcagtttccgacaaatgatctagttatgatatgggaaatgttttcattttca--ccggcattgtgttg------------------

upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA12G09990.1 (Glycine max), 5'ss of exon 2
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtataca----attcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
|||||| |||||| |  ||||||||||||| ||||| ||| ||||| |||||||||| || |||||||| ||||| || ||  |  |    ||||| |||||||| |    || |    | ||||| ||| || || |    || | |     |    ||||  | |||||||     || ||        | |||||   |                      
TAGCATAGATGCACTTCTGGAAAAGACCATCAAGCATATGCTTTTCCTGCAAAGTGTAACAAAGCATGCTGACAAGCTGAAACAGACAGGGGAATCTAAGgtatagacatcatcctctgctttttcaagcatctcagttt-caggcaactgatctagttattatatgagaaatgt---tttcattttcaccggcattgtattaa--------------------

upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA12G31460.1 (Glycine max), 5'ss of exon 7
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtatacaattcctatcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaatgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
|||||| |||||| | ||||||  |||||||||||| ||| ||||||| ||||||||||| |||||||| ||||| || ||  |  |    || || |||||||   |       || | |  |    |        ||   |||   ||||  |  || |  | |   |||| ||  |     | ||  |       |  | |                
TAGCATAGATGCACTTTTGGAACGGACCATTAAGCATATGCTTTTCTTACAAAGTGTGACAAAGCATGCTGACAAGCTGAAACAAACAGGGGAGTCTAAGgtatgggacagtatccactattcactcccgtgccttctaccttag---gcagt-tgatctagtatatggtaatatt-tatggtagctgaaacaaacaggggagtc---------------

upper sequence: LOC_Os12g06330.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv06s0009g00440.t01 (Vitis vinifera), 5'ss of exon 7
TAGCATTGATGCATTATTGGAAAAGACCATTAAGCACATGGTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtat--acaattccta---tcattttctagcgtcacaatgaatagactagcttgcagcatattcaaagagaaattaa-tgttgcaaacctgatgtcattgctgtgctattggtgaactgtgaacag
||||||||||||| |  | |||   ||||| ||||| ||| |||||||||||||||| | ||||||||||||||| || ||| |  ||   || || |||||    |||||  |||   || ||   | |  ||   ||  ||  |     |    | ||   |   ||| || |   |  ||   |||    |  |  |                          
TAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTAAGgtgagaacaatgtctagtttccttactttgtctctatatccatcaatctcttgctggaatccacttggagcaactggctcctggtgacccagagaaaagg--------------------------

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|44672670|gb|CR286104.1|CR286104
EST:     AAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAG                         ATACATGGTGGTGGTGAGAATGGCCCGCTTCTGAAAGATTACTTTGAAGGT
genomic: AAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtatacaatt ... ctgtgaacagATACATGGTGGTGGTGAGAATGGCCCGCTTCTGAAAGATTACTTTGAAGGT
EST: gi|58602076|gb|CK012604.1|CK012604
EST:     AAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCCAAG                         ATACATGGTGG
genomic: AAAGTGTGACGAAGCATGCAGACAACCTCAAGGATTCTAACGAATCAAAGgtatacaatt ... ctgtgaacagATACATGGTGG