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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgaactaagaaaagcgttgaagacttgtacaaggcccatgaacaagaattggaagaggtgttgtgtttgtttgagtaatgattgatactgcatgattcagTGCTATTTTCTCATGTTTGAGATTCTTCAATTCCAGGCAAATAGAATTTTAAGGCAAAAGATTGCTGGGGATCAGTTTCTCGATCTTGTTAGTGTTGAAA

Basic information

species Zea mays
transcript GRMZM2G416698_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G416698_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g22160.1 (Oryza sativa), 3'ss of exon 10
tgaactaagaaaagcgttgaagacttgtacaaggcccatgaacaagaattggaagaggtgttgtgtttgtttgagtaatgattgatactgcatgattcagTGCTATTTTCTCATGTTTGAGATTCTTCAATTCCAGGCAAATAGAATTTTAAGGCAAAAGATTGCTGGGGATCAGTTTCTCGATCTTGTTAGTGTTGAAA----------------------------------
                                                         ||  | ||||| |   | |     |||||  |||||  | |  ||        ||||   |   ||| || |||| |||||||||  ||| ||| || |||||||||||| |||||| ||||| |||||||||||||||||||                                  
---------------------------------------------------------gtactttgtttttgctattgcactttgat-ttgcattctactctgaatgagattcat---tataatttttgaattacagGCAAATCAAATCTTAGGGGAAAAGATTGCTGAGGATCAATTTCTTGATCTTGTTAGTGTTGAAACACAAGTGCGTTCAGTCTGCAAAGAACTCTACAG

upper sequence: GRMZM2G416698_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g22160.1 (Oryza sativa), 3'ss of exon 9
----tgaactaagaaaagcgttgaaga--cttgtacaaggcccatgaacaagaattggaagaggtgttgtgtttgtttgagtaatgattgatactgcatgattcagTGCTATTTTCTC-ATGTTTGAGATTCTTCAATTCCAGGCAAATAGAATTTTAAGGCAAAAGATTGCTGGGGATCAGTTTCTCGATCTTGTTAGTGTTGAAA
    || | |  || ||  || || |    |  ||  | ||  || |  |     ||| |       || ||   |||||  | |   |  || |     | || | ||||   | ||  |  || |  | | | ||| |  |  |  | |       |   ||||||  | || ||| |  | |      |   | |      |  
tcgttgcattgtgagaa-tgtcgatgtgtttcttatgaagcttatca-tagcttctggtactttgcctgggtccatttgaccagttgctcttattcttgtagTCTGAGCTAGAATATCTGTCCTTCATGTACATGAATCCTGGTGATTTCGCTGAACTAAAGAAAAGA--GTTGAGGACC--TCTACAAGGCCCATGAACAAGAAT-


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattggaagaggtgttgtgtttgtttgagtaatgattgatactgcatgattcagTGCTATTTTCTCATGTTTGAGATTCTTCAATTCCAGGCAAATAGAATTTTAAGGCAAAAGATTGCTGGGGATCAGTTTCTCGATCTTGTTAGTGTTGAAA
                                  gattgat  putative branch site (score: 4)
                              taatgatt  TA-rich tract