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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA

Basic information

species Zea mays
transcript GRMZM2G053764_T05
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.3 (Glycine max), 3'ss of exon 1
----gtgaggatgctggacctctcttggtctgttttccaattctg----cctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
    ||||   |    ||  | | ||  | | ||||| | ||| |      |     ||      ||| | | |||||  || |||      |||  |  |  | |||   ||| |     |||||||||||| || |||||||| |||| ||| |||||||| ||||| || ||||| || |||||| | || ||    || |                    
gtctgtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttg--gattgacatgg---atcagGTCATCAGGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA--------------------

upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA08G01940.2 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctg----cctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
||||   |    ||  | | ||  | | ||||| | ||| |      |     ||      ||| | | |||||  || |||      |||  |  |  | |||   ||| |     |||||||||||| || |||||||| |||| ||| |||||||| ||||| || ||||| || |||||| | || ||    || |                    
gtgatcttttccgaattttttttttgtattttcgatttcagaaagtgttcttttgcataaattgttgtctttttccatttggggtgcgttg--gattgacatgg---atcaggtcatcagGATGATGAGTGATTACAAGGTGGAGACGGTCAACGATGGCATGCAAGAGTTCTTTGTGGAATTCCACGGACCCAAAGACA--------------------

upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA09G39370.4 (Glycine max), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
        | |   ||| |||   ||  ||   |||   |  |   |  | ||||  | |  | | ||  ||||   |   | ||    |  | | ||| |||        || ||||||||||| || ||||||||||||||| | || ||||| ||||| ||||| |  ||  ||||| | || ||    || |                    
--------gttaatcctttctctctcaattcatcaaagtt-tcaatcttttttctaatggggtctcttcctgattctgg-gtcctctttg--tcttttgtttt-------ccgtagGATGATGAGTGATTACAAGGTCGAGATGATTAATGATGGAATGCAAGAATTTTATGTGCAATTCCATGGACCCAATGACA--------------------

upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: AT1G63800.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtg--ttctgcttgctttttt--ttttgatctggccattcttgccggctttcttggttta--tcggcgtcg-----cagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
     |    |       ||||  | | || ||   || | | |||   ||   || | ||  |||| |  | ||  | |||| |||     ||  ||| |||   |   | |  ||        ||||||||||| ||||||||||| |||||| | || ||||| ||||| || ||||| ||||||||||  || ||    || |                    
-----gtaatttttttaatcttattatcttatcagtttattcttgattttgagctccgattttttttctaatgtttgtttggcgatttgattcgatttttttgtgatgatttgatgtgagagtttagGATGATGAGTGACTACAAGGTGGAGATGATCAATGATGGCATGCAAGAGTTCTTTGTCGAATTCAGTGGACCCAAAGACA--------------------

upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: PP1S37_166V6.1 (Physcomitrella patens), 3'ss of exon 1
gtgaggatgctggacc-tctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
           |||   | |  || |   |||||   |||    ||   | | | ||     |       ||| |   |   |   || ||   |||  |  |    |     | ||||||||||| ||||||||||||||||||||||| ||||| |||   |||||||  || || ||  | || |||   || |                    
-----------ggattgtgttgtgattacttttcttgttcgaattggt-gcggtttggggaatcggcaagttgtt---gttgtatctgacga--ttcaagaatgtgtgattgggtagGATGATGAGTGACTACAAGGTCGAGATGGTGAATGATGGAATGAGCGAATTCTATGTGGAGTTTCATGGACCGCGTGAGA--------------------

upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ23672 (Selaginella moellendorffii), 3'ss of exon 1
---------------gtgaggatgctggacctctcttggtctgttttccaattctgcctgaccgtgttctgcttgcttttttttttgatctggccattc-ttgccggctttcttggtttatcgg----cgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
                   | ||       |  |||| | || |        | ||    |||    | |  | ||||| ||  |   ||||   |||| ||||    | | || | ||  |      | |  |||||||||||| ||||||||||| |||||||| |||||||||||| | || ||    || || ||| | || ||    || |                    
gtgagtctcgcctcctctcgaatttcaattccttcttcg-ctctccagtggctatgaaaaacctctctttcttcgctttcttcctc--tctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATA--------------------

upper sequence: GRMZM2G053764_T05 (Zea mays), 3'ss of exon 1
lower sequence: EFJ34378 (Selaginella moellendorffii), 3'ss of exon 1
gtgaggat-gctggacctc---tcttggtctgttttccaat-tctgcctgaccgtgttctgcttgcttttttttttgatctggccattc-ttgccggctttcttggtttatcgg----cgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
|||||  | ||     |||   | |   |   || | |  | ||     ||||    | |  | ||||| ||  |   ||||   |||| ||||    | | || | ||  |      | |  |||||||||||| ||||||||||| |||||||| |||||||||||| | || ||    || || ||| | || ||    || |                    
gtgagtctcgcctcctctcgaatttcaattccttcttcgctctccagtggacctctctttcttcgctttcttcctc--tctgctaattcattgcttcttctttttgcttcccattcctctttccagGATGATGAGTGACTACAAGGTGGAGATGGTAAACGATGGGATGAACGAGTTTAATGTGGAGTTCCATGGACCTCGGGATA--------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttttttgatctggccattcttgccggctttcttggtttatcggcgtcgcagGATGATGAGCGACTACAAGGTCGAGATGGTGAACGATGGGATGCAGGAATTCTTCGTCGAATTCAAGGGGCCGGCCGAAAGTAATAGCCCTCGCGCTGAA
      ttttgat  putative branch site (score: 4)
     tttttgat  TA-rich tract