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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaatgatatgctagattgctaggctaacgcaatccttaaactcagcaaataggttttttcttacaaactaacagtatgtggtgtttgcagAGCTCTACAATATTGTTCGAATACCTAATGTATTCTGTTACACTTATGGTGAACTAAGGACCGCTACTGAAAATTTTAGTTCTGCTAATCTTCTTGGTGA

Basic information

species Zea mays
transcript GRMZM2G126858_T02
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os04g52640.2 (Oryza sativa), 3'ss of exon 18
gtaaaatgatatgctagattgctaggctaacgcaat-ccttaaactcagcaaataggttttttcttacaaactaac--agtatgtggtgtttgcagAGCTCTACAATATTGTTCGAATACCTAATGTATTCTGTTACACTTATGGTGAACTAAGGACCGCTACTGAAAATTTTAGTTCTGCTAATCTTCTTGGTGA------
         ||   | |    |||||| |||   ||  ||| |||  |||||| |||      || | ||| | |   |   | | |||||||||||||| |||| ||||||| ||| ||||||| ||||| ||||      ||||||||||||| |||| |||||||||||||||||    || | |||||||||      
--------gtaca-tggcacactaggccaacaatatatctttaaccgagcaaacaggaag---ctaataaattgatgtaccttttcgtgtttgcagAGCTGTACAGTATTGTTGGAAGACCTAATATATTCAGTTA------TGGTGAACTAAGGTCCGCAACTGAAAATTTTAGTTCCAGCAACCGTCTTGGTGAAGGAGG

upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os04g52614.1 (Oryza sativa), 3'ss of exon 15
gtaaaatgatatgctagattgctaggctaacgcaat-ccttaaactcagcaaataggttttttcttacaaactaaca-gtatgtg-gtgtttgcagAGCTCTACAATATTGTTCGAATACCTAATGTATTCTGTTACACTTATGGTGAACTAAGGACCGCTACTGAAAATTTTAGTTCTGCTAATCTTCTTGGTGA------
         ||   | |    ||||||| ||   ||  | |  |||  |||||   |   ||    | ||| | |    ||| |   ||||||||||||| |||| ||||||  ||| ||||||||||||| |||| |      ||||||||||| | || |||||||||||||||||    || |  ||||||||      
--------gtaca-tggcacactaggctcacaatatatccttgactaggcaaactagaagtta---ataaattgatgtatatttttatgtttgcagAGCTATACAGTATTGTCGGAAGACCTAATGTATTCAGTTATA------GTGAACTAAGGTCTGCAACTGAAAATTTTAGTTCCAGCAACCGCCTTGGTGAAGGAGG

upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os04g52600.1 (Oryza sativa), 3'ss of exon 19
gtaaaatgatatgctagattgctaggctaacgcaat-ccttaaactcagcaaataggttttttcttacaaactaacagt--atgtggtgtttgcagAGCTCTACAATATTGTTCGAATACCTAATGTATTCTGTTACACTTATGGTGAACTAAGGACCGCTACTGAAAATTTTAGTTCTGCTAATCTTCTTGGTGA------
         ||   | |    ||| ||| ||    |  | |  ||   ||||| | |   ||    | ||| | |   |   | |  |||| |||||||| |||| ||||||| ||| ||||||||||||| |||| |      ||||||||||| | || |||||||||||||||||    || | |||||||||      
--------gtaca-tggcacactatgctcacattgtatccttgaccaggcaaacaagaagtta---ataaattgatgttcctttttatgttcgcagAGCTATACAGTATTGTTGGAAGACCTAATGTATTCAGTTATA------GTGAACTAAGGTCTGCAACTGAAAATTTTAGTTCCAGCAACCGTCTTGGTGAAGGAGG

upper sequence: GRMZM2G126858_T02 (Zea mays), 3'ss of exon 17
lower sequence: LOC_Os04g52606.1 (Oryza sativa), 3'ss of exon 5
gtaaaatgatatgctagattgctaggctaacgcaatccttaaactcagcaaataggttttttcttacaaactaac--agtatgtggtgtttgcagAGCTCTACAATATTGTTCGAATACCTAATGTATTCTGTTACACTTATGGTGAACTAAGGACCGCTACTGAAAATTTTAGTTCTGCTAATCTTCTTGGTGA------
           | |  ||   |||||            || |||  || |||| ||      || | ||| | |   |   | |  ||||||||||| | |||| ||||||| ||| ||| |||||| || ||||      |||||| |||||| |||| |||||||||||||||||    || |||||||||||      
----------gtacaggaccactagg------------ttcaaccgagtaaatgggaag---ctcataaagtgatgtatctttttatgtttgcagAGTTGTACAGTATTGTTGGAAGACCCAATGTAATCAGTTA------TGGTGAGCTAAGGTCCGCAACTGAAAATTTTAGTTCCAGCAACCTTCTTGGTGAAGGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaactcagcaaataggttttttcttacaaactaacagtatgtggtgtttgcagAGCTCTACAATATTGTTCGAATACCTAATGTATTCTGTTACACTTATGGTGAACTAAGGACCGCTACTGAAAATTTTAGTTCTGCTAATCTTCTTGGTGA
                              aactaac  putative branch site (score: 1)
                  ttttttcttacaaa  TA-rich tract