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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACTTGGCCGCTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatcatgatactgcttcagtgtaatgtatcaagcatctgcagatatgggcatgcttcagcattttctaacattaaacgtttgaatatcatggcag

Basic information

species Oryza sativa
transcript LOC_Os08g29370.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g29370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G015967_T01 (Zea mays), 5'ss of exon 6
GAACTTGGCCGCTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatcatgatactgcttcagtgtaatgtatcaagcatctgcagat-atgggcatgct--tcagcattttctaacattaaacgtttgaatatcatggcag
|||||||| |||||||||||||||||||| || ||||| || || |||||||||||||| ||||| ||||| |||||    |      |||   | || |   ||||| |||| ||||||  ||  ||||  |    |   | ||||||| | | |    |  |   |||| |||
GAACTTGGTCGCTACAAGGCTCAAACAAAACTCCCTTTCAACGCTTTTGGAACAATGGCTATGGCAAGAGAAgtaagagagaca----tgcaagattgca-catatca-gcatatgcagacgatctgcatcgtatctaatgtattctaacctgagataacttcactgcatgacag

upper sequence: LOC_Os08g29370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA19G01260.1 (Glycine max), 5'ss of exon 6
GAACTTGGCCGCTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatcatgatactgcttcagtgtaatgtatcaagcatctgcagatatgggcatgctt--cagcattttctaacattaaac-gtttgaatatcatggcag
|| ||||| |  ||||||||||||||||||||||| |||||||| || || |||||||||||||| |||||||| || |  ||        | || ||   |   | ||||||    |  | |     | |||      |||| ||    |||    |||||||||         
GAGCTTGGTCTATACAAGGCTCAAACAAAGCTTCCGTTTAATGCTTTCGGTACAATGGCAATGGCAAGAGATgtgaggagaatctattctttgcattgctgttctttaagcatgataatcttttttttttcttgcttttatttactccttttatgttgtttgaatag--------

upper sequence: LOC_Os08g29370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA13G23850.1 (Glycine max), 5'ss of exon 6
GAACTTGGCCGCTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatcatg-atactgcttcagtgtaatgtatcaagcatctgcagatatgggcatgcttcagcattttctaacattaaac-gtttgaatatcatggcag
|| ||||| |  ||||||||||||||||||||||| |||||||| || || |||||||||||||| |||||||| || |  ||  || ||    || ||   |   | ||||||    |  | |              |||| ||    |||    |||||||||         
GAGCTTGGTCTATACAAGGCTCAAACAAAGCTTCCCTTTAATGCTTTCGGTACAATGGCAATGGCAAGAGATgtgaggagaatctattctttgacattgctgttctttaagcatgctaatcttttttttcttgcttctatttactccttttatgttgtttgaatag--------

upper sequence: LOC_Os08g29370.1 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv14s0066g01410.t01 (Vitis vinifera), 5'ss of exon 6
GAACTTGGCCGCTACAAGGCTCAAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatcatgatactgcttcagtgtaatgtatcaagcatctgcagatatgggcatgcttcagcattttctaacattaaacgtttgaatatcatg--gcag
|| ||||| |  ||||||||||||||||||||||| ||||||||||||||||||||||| ||||| ||||||||||| |   | || |       |  || |    ||    | |   ||  ||             ||||  |    ||     |||  || | |    ||||
GAGCTTGGTCTGTACAAGGCTCAAACAAAGCTTCCATTTAATGCATTTGGAACAATGGCCATGGCAAGAGATgtaagaactctaattcataccatggctatttctacatatgtgtatggacttgatggctaaatgatatttgttctttttttgttttttcattttactctgcag

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|86848897|gb|CI295714.1|CI295714
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|88221803|gb|CI221759.1|CI221759
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|313084044|gb|HO213827.1|HO213827
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|25804245|gb|CA760206.1|CA760206
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|86500872|gb|CI143505.1|CI143505
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAATTCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|29658080|gb|CB654355.1|CB654355
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|29613721|gb|CB618734.1|CB618734
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|29657974|gb|CB654249.1|CB654249
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|86831350|gb|CI297619.1|CI297619
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|86257246|gb|CI004064.1|CI004064
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
EST: gi|29622079|gb|CB627090.1|CB627090
EST:     AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGAT                         GAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG
genomic: AAACAAAGCTTCCTTTTAATGCATTTGGAACAATGGCAATGGCTAGAGATgtaagtatca ... atcatggcagGAATTTGATGACAATTCTGCTTCTAGCCAAATCTTTTGGTTGTTAAAAGAG