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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtacacggtcttcctctggtgtggtggccaaggcacgtgcacgctcggccggctctgctctgctctgacttggctctggccggcgtcgctcgcatcgcagGGGCTGGGGATCACGTTGTTCGGGATGGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGCTTCCCCGTCGGGCCCATCGAGAACGTGCCCTACT

Basic information

species Zea mays
transcript GRMZM2G090051_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G090051_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os04g48880.1 (Oryza sativa), 3'ss of exon 3
gtacacggtcttcctctggtgtggtggccaaggcacgtgcac-gctcggccggctctgctctgc-------tctgacttggctctggccggcgtcgctcgcat----cgcagGGGCTGGGGATCACGTTGTTCGGGATGGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGCTTCCCCGTCGGGCCCATCGAGAACGTGCCCTACT
    | |  |  |  |  |   || |  |    | |   | | | ||||||||  |  |    |       ||  | | || |||| || ||  ||    | |      ||||| || ||||| ||| ||||||| ||||||||||||||||| ||||||||||| ||||||||||||||||||||||| ||||||| ||| ||||||||||
--gtaagcccagcgccctgcagggagcacgtaacgctctctctggtcggccgggcccacctgtcagagccatccaattgggatctgacctgccacgtgtccgtttcttacagGGCCTCGGGATTACGCTGTTCGGCATGGCCTACATGTTCGTCCACGACGGCCTGGTCCACCGCCGCTTCCCCGTCGGCCCCATCGCGAATGTGCCCTACT

upper sequence: GRMZM2G090051_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv02s0025g00240.t01 (Vitis vinifera), 3'ss of exon 4
gtacacggtcttcctctggtgtggtggccaaggcacgtgcacgctcggccggctctgctctgctctgact-tggctctggccggcgtcgctcgcat-cgcagGGGCTGGGGATCACGTTGTTCGGGATGGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGCTTCCCCGTCGGGCCCATCGAGAACGTGCCCTACT
 |||  ||  |     || ||  | |   || |  ||||       |      |    | ||   ||  | |   | | |      |   |    | ||||||| || || || ||  |||| || |||||||||||||| || ||||||||||| |||||||| || ||||| ||||| |||||||  ||||| || ||  
ttacgtggcgtggtgttgatggagagaagaaagatcgtgggaatctgttt--ttacattttggcatgtttctaattttagttttatttatttattttcgcagGGACTAGGAATAACAGTGTTTGGCATGGCCTACATGTTTGTCCACGACGGCCTTGTCCACCGTCGATTCCCTGTCGGACCCATCGCCAACGTCCCTTATC

upper sequence: GRMZM2G090051_T02 (Zea mays), 3'ss of exon 2
lower sequence: EDO99380 (Chlamydomonas reinhardtii), 3'ss of exon 4
-------gtacacggtcttcctctggtgtggtggccaaggcacgtgcacgct-----------cggccggctctgctctgctctga----cttggctctggccggcgtcgctcgcatcgcagGGG--CTGGGGATCACGTTGTTCGGGATGGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGCTTCCCCGTCGGGCCCATCGAGAACGTGCCCTACT
          |  | ||   ||| || | || ||      | | | |   |            |  || ||    |||   ||  |    |    | | |  ||||| ||   || |||  | ||  ||||| |||||| ||||||| || |||||||||||| | ||||||||||| || ||||||||||||||||| |                        
tcatactacgcgtgctccatctcgggcggggcggtggcatcccattcttcccatttcccaccactacctgcctacctcccatcccaaacccccaacccagATCGGCGGCGTGTGCTTCGGCGCGGGTCTGGGCATCACGCTGTTCGGCATCGCCTACATGTTCTTCCACGACGGCCTGGTGCACCGCCGCTTCCCCGTGG------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggccggctctgctctgctctgacttggctctggccggcgtcgctcgcatcgcagGGGCTGGGGATCACGTTGTTCGGGATGGCCTACATGTTCGTGCACGACGGCCTCGTCCACCGCCGCTTCCCCGTCGGGCCCATCGAGAACGTGCCCTACT
                 ctctgac  putative branch site (score: 3)