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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag

Basic information

species Oryza sativa
transcript LOC_Os04g59040.2
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g59040.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G104918_T03 (Zea mays), 5'ss of exon 8
ACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaat---ataagtccataacaagatgtg--------attgtgtgtgt------------tgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
||||||| || |||||||| || || || ||||||||||||||||| || |  || ||||  || |||||||||||||||||||||| |||| | |   || ||||      | | ||  | |||| || ||        ||| | |   |            | ||   |   | |  || ||     || |||| || |    | | ||||| ||  || || |||| ||| |||
ACAAGAAAAACGAGAACAAAGAAGTCGCAGTTGATGCATTCTTGCCCGCGACAACAGCTCAAGAAGCCATTCAGTACTCCATgtaagctctcggcttgacactgaaccttcgtcactctgttacaaaatttgcgtccttgattctttacttgttttccctccttttgtggtgtttgttgag-tatggaaatgccttgtgaccctcagtaacaca-atacttattgatttgatcgcag

upper sequence: LOC_Os04g59040.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G061928_T03 (Zea mays), 5'ss of exon 8
ACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatata----agtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
| |||||||||||||| || ||||||||||| ||||||||||||||||| | ||| ||||| || ||||||||||||||||||||||  ||| | |   || ||||   |     | ||| | |||| |    ||| |||   || |      | |  |  |     | | ||   | ||  |    | |  ||| ||  || || || | ||| |||
ATAAGAAGAATGAGAATAAAGAGGTTGCTGTCGATGCATTCTTGCCTGCGACCACAGCTCGAGAGGCCATTCAGTACTCCATgtaag--ctcagcttgacactgaacctttcgctaatccgttacaaaagtgcattctgta-attatttctccgttcggttgtggtgattgttgagtatgtgactcttagtaacacatacttattgatctgatcgcag

upper sequence: LOC_Os04g59040.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA07G05390.2 (Glycine max), 5'ss of exon 7
------------------ACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttg--tggaataggtatgaagataccactattccttttggcatatattgacacatatttttgtttatttaatctcag
                  ||||||||||||||||||||||||| || ||| |||  ||  | |||||   ||||||   |||  |||| |||||||| |||| |||      || |  |  |||     |||  ||       | | | | |   |  |   || ||| ||  |  ||| ||    |  | || ||||  |||                               
TCTTAATATATTGATCAGACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCATCCACTGCCGTTGAATCCATCCAGTACTCAATgtcagtgtctaattatctatagaacacctagtttatt-tgttttttaactctagtttctagttgaaattggcttctagagac----acactttatggccaataag-----------------------------

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

upper sequence: LOC_Os04g59040.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA16G01960.1 (Glycine max), 5'ss of exon 6
ACAAGAAGAATGAGAACAAGGAGGTTGCTGTTGATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctctgttctgcagtgaaatataagtccataacaagatgtgattgtgtgtgttgtggaataggtatgaagataccactattccttttggcatatattgacacatatttt-tgtttatttaatctcag
||||||||||||||||||||||||| || ||| |||  ||  | |||||   |||||||  |||  |||| |||||||| |||| |||      || |  |  |||     |||  ||         |  || | | |  | |  | ||| ||         ||  ||| | ||       ||  |||||| | ||| ||   |           
ACAAGAAGAATGAGAACAAGGAGGTAGCAGTTAATGATTTTCTACCTGCATCCACTGCTGTTGAATCCATCCAGTACTCAATgtgagtgtctaattatctatagaacacctagtttat---------ttgtt-tttttaatctctagtagcta-------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|58669944|gb|CK058630.1|CK058630
EST:     GATGCATTCTGGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGCCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88266037|gb|CI376939.1|CI376939
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86873424|gb|CI341649.1|CI341649
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|33684219|gb|CF312458.1|CF312458
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86527296|gb|CI167502.1|CI167502
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88320691|gb|CI525633.1|CI525633
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86834579|gb|CI340696.1|CI340696
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86846050|gb|CI347237.1|CI347237
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88384252|gb|CI551178.1|CI551178
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|33684220|gb|CF312459.1|CF312459
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCT
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCT
EST: gi|89171018|gb|CI040295.1|CI040295
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88450730|gb|CI549816.1|CI549816
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88291938|gb|CI532530.1|CI532530
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88963306|gb|CI028322.1|CI028322
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88441295|gb|CI538738.1|CI538738
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88555507|gb|CI485770.1|CI485770
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|88965200|gb|CI009236.1|CI009236
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|86498205|gb|CI140838.1|CI140838
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
EST: gi|55434347|gb|CV730295.1|CV730295
EST:     GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCAT                         GGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC
genomic: GATGCATTCTTGCCTGCCAACACTGCTCGTGACGCCATTCAGTACTCCATgtaagttctc ... ttaatctcagGGACCTGTATGCGCAATATATCTTGCAAAGCTTGAGGCAGTAGAGTGCTAC