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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTAACAATATGTTTTTAGACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag

Basic information

species Oryza sativa
transcript LOC_Os04g59040.3
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59040.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G104918_T03 (Zea mays), 5'ss of exon 8
TTAACAATATGTTTTTAGACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaat---ataagtccataacaagatgtga------------ttgtgtgtgttg--------tggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
                  ||||||| || |||||||| || || || ||||||||||||||||| || |  || ||||  || |||||||||||||||||||||| |||| | |   || ||||      | | ||  | |||| || ||             ||   ||| ||         ||   |   | |  || ||     || |||| || |    | | ||||| ||  || || |||| ||| |||
------------------ACAAGAAAAACGAGAACAAAGAAGTCGCAGTTGATGCATTCTTGCCCGCGACAACAGCTCAAGAAGCCATTCAGTACTCCATgtaagctctcggcttgacactgaaccttcgtcactctgttacaaaatttgcgtccttgattctttacttgttttccctccttttgtggtgtttgttgag-tatggaaatgccttgtgaccctcagtaacaca-atacttattgatttgatcgcag

upper sequence: LOC_Os04g59040.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G061928_T03 (Zea mays), 5'ss of exon 8
TTAACAATATGTTTTTAGACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatata----agtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
                  | |||||||||||||| || ||||||||||| ||||||||||||||||| | ||| ||||| || ||||||||||||||||||||||  ||| | |   || ||||   |     | ||| | |||| |    ||| |||   || |      | |  |  |     | | ||   | ||  |    | |  ||| ||  || || || | ||| |||
------------------ATAAGAAGAATGAGAATAAAGAGGTTGCTGTCGATGCATTCTTGCCTGCGACCACAGCTCGAGAGGCCATTCAGTACTCCATgtaag--ctcagcttgacactgaacctttcgctaatccgttacaaaagtgcattctgta-attatttctccgttcggttgtggtgattgttgagtatgtgactcttagtaacacatacttattgatctgatcgcag

upper sequence: LOC_Os04g59040.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA07G05390.2 (Glycine max), 5'ss of exon 7
TTAACAATATGTTT-TTAGACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttg--tggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
 |   ||||| ||  | ||||||||||||||||||||||||||| || ||| |||  ||  | |||||   ||||||   |||  |||| |||||||| |||| |||      || |  |  |||     |||  ||       | | | | |   |  |   || ||| ||  |  ||| ||    |  | || ||||  |||                               
-TCTTAATATATTGATCAGACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtctaattatctatagaacacctagtttatt-tgttttttaactctagtttctagttgaaattggcttctagagac----acactttatggccaataag-----------------------------

upper sequence: LOC_Os04g59040.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA07G05390.1 (Glycine max), 5'ss of exon 8
TTAACAATATGTTTTTAGACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttg--tggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
                  ||||||||||||||||||||||||| || ||| |||  ||  | |||||   ||||||   |||  |||| |||||||| |||| |||      || |  |  |||     |||  ||       | | | | |   |  |   || ||| ||  |  ||| ||    |  | || ||||  |||                               
------------------ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtctaattatctatagaacacctagtttatt-tgttttttaactctagtttctagttgaaattggcttctagagac----acactttatggccaataag-----------------------------

upper sequence: LOC_Os04g59040.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA16G01960.1 (Glycine max), 5'ss of exon 6
TTAACAATATGTTTTTAGACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttt-tgtttatttaatctcag
                  ||||||||||||||||||||||||| || ||| |||  ||  | |||||   |||||||  |||  |||| |||||||| |||| |||      || |  |  |||     |||  ||         || || | |    | | |  ||| ||         ||  ||| | ||       ||  |||||| | ||| ||   |           
------------------ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCATCCACTGCTGTTGAATCCATCCAGTACTCAATgtgagtgtctaattatctatagaacacctagtttat--------ttgtttttttaatctctag--tagcta-------gtcaaaattgccttc------tagagacacacactttatgaccaa----------

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|86498605|gb|CI141238.1|CI141238
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC