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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCCAACCGACATTACTTTTTCCTCCACTGAGACATGCCGAAGGAGTTGAACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtgtttcctgcacctacttgctacctattctgtatttgatgtattcaatttcctttttatcagttttctcgaaatatatgctaataggcttgt...

Basic information

species Oryza sativa
transcript LOC_Os01g08700.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g08700.3 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM5G844173_T01 (Zea mays), 5'ss of exon 10
CTCCCAACCGACATTACTTTTTCCTCCACTGAGACATGCCGAAGGAGTTGAACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtgtttcctgc------acctacttgctacctattctgtatttgatgtattcaatt-tcctttttatcagttttctcgaaatatatgctaataggcttgt
 |||||||| ||  | |||||||| |||||| ||||||| |||||||||||  | |||||||| ||||||||||||||||||||||| || || |  |||||||||| | |||  |        |||   ||    | |  |    |    | | || | ||  |  ||   |   ||    |  || || | ||||| |       
TTCCCAACCAACGCTGCTTTTTCCACCACTGCGACATGCTGAAGGAGTTGACGTACATCATGAACCACTAGGTGGCTATGTATCATCATATAAGAAACAGgtatgcaatattttttctctcaaaaccattttaaagctttctaaagaagctacggatacgatgataattgacacttgtccagtgaaagtaca-gctaaaat------

upper sequence: LOC_Os01g08700.3 (Oryza sativa), 5'ss of exon 11
lower sequence: GRMZM2G107101_T01 (Zea mays), 5'ss of exon 11
CTCCCAACCGACATTACTTTTTCCTCCACTGAGACATGCCGAAGGAGTTGAACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtgtttcctgcacctacttgctacctattctgtatttgatgt--attcaatttcctttttatcagttttctcgaaatatatgctaataggcttgt--
 |||||||| ||  | |||||||| ||||||||||||||||||||||||||| | |||||||| ||||||||||||||||||||||| || || | ||||||||    | ||||    |   | ||   |    ||||  |  || |||  || | ||     | |   || |      |   | || |  ||    | | |  
TTCCCAACCAACGCTGCTTTTTCCACCACTGAGACATGCCGAAGGAGTTGAAGTACATCATGAACCACTAGGTGGCTATGTATCATCATATAAGAAGCAGgtata---tttttctcaaaaacattttaaaagctttctaaagatgctgtggatacgatgataatgtagacactaaaactgttgtcta-gtgaaagaacatcttc
















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|29659877|gb|CB656152.1|CB656152
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|33675353|gb|CF303592.1|CF303592
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|58688253|gb|CK076940.1|CK076940
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|58688764|gb|CK077451.1|CK077451
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29631643|gb|CB636652.1|CB636652
EST:     AACTCCATCATGAGCTACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29678221|gb|CB674496.1|CB674496
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|33676336|gb|CF304575.1|CF304575
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|58687558|gb|CK076245.1|CK076245
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCAC
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCAC
EST: gi|29635195|gb|CB640204.1|CB640204
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29662456|gb|CB658731.1|CB658731
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|58606034|gb|CK034067.1|CK034067
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29683422|gb|CB679697.1|CB679697
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29664618|gb|CB660893.1|CB660893
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|58605455|gb|CK033488.1|CK033488
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29657250|gb|CB653525.1|CB653525
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|33799165|gb|CF325440.1|CF325440
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|33801382|gb|CF326562.1|CF326562
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|33798134|gb|CF324927.1|CF324927
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29623544|gb|CB628555.1|CB628555
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|29658233|gb|CB654508.1|CB654508
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
EST: gi|58695779|gb|CK084466.1|CK084466
EST:     AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAG                         CTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT
genomic: AACTCCATCATGAGCCACTAGGTGGCTATGTATCATCGTACAAAAGGCAGgtatgcagtg ... ctgcacaaagCTGGAAGTTCCTGCATCTGAAGCCACTATTGATGCCACTGCGCAAGGCATT