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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgtacag

Basic information

species Oryza sativa
transcript LOC_Os03g16980.5
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G044027_T02 (Zea mays), 5'ss of exon 5
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgta-cag
|||||||| |||| || ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||||| ||||||       || ||  | | |  |||||| |    ||     |    ||  | | |  ||| ||   | |  |||| ||    ||  ||||   || |||| |||
ATGTCACCGAGCCACTTCTTGTGGAGGTTGACCAGATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAATCCTGTTAAGgta-------tactagttctctg-ctctgtgagagacagtacgttgtttaatagttt--ttcctggtatttcatgatttt--ggtgtttgtaatttcctgtaacag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G165357_T02 (Zea mays), 5'ss of exon 4
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgtacag
|||||||| |||| || |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||       |  || ||      ||||||||           | | |         | |||||    | | ||||||||    |   || ||  ||    ||||
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAGgta-------tgctagat------ctctgttaca---------tgagaggtggtatattttcatagtttttcctgatattggtgtttgtg-attgtctgtaacag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G177373_T02 (Zea mays), 5'ss of exon 5
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgtacag
|||||||| |||| || |||||||| ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||| |||| ||||||       |  || ||      ||||| |            | | |         | |||||    | | ||||||||    |   ||  |     |  ||||
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTGTCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACTCTGTTAAGgta-------tgctagat------ctctgctgca---------tgagaggtggtatattttcatagtttttcctgatattggtgtttgtggttgtctgta-acag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G157772_T01 (Zea mays), 5'ss of exon 2
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgtacag
|||||| | |||| || ||||| || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||       |  || ||      ||||| |            | | |         | |||||    | |  |||||||    |   || ||  ||    ||||
ATGTCATCGAGCCGCTTCTTGTAGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTTAAGgta-------tgctacat------ctctgctgca---------tgagaggtggtatattttcatagtttttcttgatattggtgtttgtg-attgtctgtaacag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G382038_T01 (Zea mays), 5'ss of exon 6
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtc--tctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgtacag
|||||||| |||| || |||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||| ||||||   |   ||| |  |  ||   |    ||  | |   |   ||    | |  || |||    |||  |||  |  ||| |||  |                   
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACTCTGTTAAGgtatgctagatctctgctgcatgagaggtggtatattttcatagtttt--tcctgatattg---gtgtt-tgtgattgtatgtaacag-------------------

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G300412_T01 (Zea mays), 5'ss of exon 11
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctctattatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgttctgatatttaaatggatgtataatcatgtacag
|||||||| |||| || |||||||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||| |||| ||||||       |  || ||      ||||| |            | | |         | |||||    | | ||||||||    |   || ||  ||    ||||
ATGTCACCGAGCCGCTTCTTGTGGAAGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATATTCTACAAGCACAACTCTGTTAAGgta-------tgctagat------ctctgctgca---------tgagaggtggtatattttcatagtttttcctgatattggtgtttgtg-attgtctgtaacag

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA12G06980.2 (Glycine max), 5'ss of exon 4
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc-ta----ttatatatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgtt-ctgatatttaaatggatgtataatcatgtacag
|||||||  |||   || |  | |||||||| ||||||||||| ||||| ||||| ||||| ||||| ||||||||  |||||||||| |||||   |  || ||     ||  | ||||  ||||| |  | | |  || |   |   |    | | ||||   | || ||   |   || ||| | ||             
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATACAACCCTGTAAAGgtgggggttcgtagagtctacctttatatttctgtcatttaccatgatcc---tgtcagctgtctacatgatttatttcttgcacagaagtggctttaggtct--------

upper sequence: LOC_Os03g16980.4 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA11G15010.1 (Glycine max), 5'ss of exon 5
ATGTCACCCAGCCCCTGCTTGTGGAGGTTGACCAAATCTATCACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctct---attata--tatataactctgttaagtccaactattcaaatacaaatcttgttcatgtcctgtt-ctgatatttaaatggatgtataatcatgtacag
|||||||  |||   || |  | |||||||| ||||||||||| ||||| ||||||||||| ||||||||||||||  |||||||||| |||||   |  |||   ||| ||  | ||||  ||||| |  | | |  || |   |   |    | | ||||   | || ||   |    | | | | ||    |        
ATGTCACAGAGCAATTGTTGATTGAGGTTGATCAAATCTATCATCTTGCATGCCCTGCTTCTCCAATCTTCTACAAATACAACCCTGTAAAGgtgggggttcttagattctacttttatatttctgtcatttaccatgatcc---tgtcagctgtctacatgatttatttcttgcacaggagtagttttagttcc--------

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|58659240|gb|CK047920.1|CK047920
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|58590735|gb|CF989043.1|CF989043
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAA-ATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|30229035|gb|CB966926.1|CB966926
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|428184|gb|D24332.1|D24332
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|30228342|gb|CB966233.1|CB966233
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|313080404|gb|HO213412.1|HO213412
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|33380802|gb|CF196145.1|CF196145
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|58656016|gb|CK044696.1|CK044696
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|58672962|gb|CK061648.1|CK061648
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
EST: gi|58659773|gb|CK048453.1|CK048453
EST:     ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAG                         ACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG
genomic: ACCTTGCTTGCCCTGCTTCACCAATCTTCTACAAGCACAACCCTGTCAAGgtacagtctc ... tcatgtacagACCATCAAGACAAACGTTATCGGAACCCTGAACATGCTTGGACTTGCCAAG