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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgcttgcatgaggtggcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT

Basic information

species Glycine max
transcript GLYMA08G22140.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os06g05180.2 (Oryza sativa), 3'ss of exon 13
-----gtaagtgcttgcatgaggtggcatcagctttctgcttttattt--cttcttactgt--ttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
       || |  |  |    | |      || ||  | ||||||      ||| |||||   |   || |||||| |   | || ||     ||||||| || |||||||||||||||||  ||||  | || || ||||||||||||||||| || || |||||||| 
gtgagtcaaatattatctattgatatttatagattgatacttttaacgaatttcatactgaaataactagttttgtcactgtattttt-----agAACCTTTATTGGGCTGATAGCGGTGACCTAGTTGCAATAGCAAGTGATACATCATTCTACATACTGAAGTACAAC

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g11830.2 (Oryza sativa), 3'ss of exon 13
gtaagtgcttgcatgaggtggcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatt----tttcttgtgt-cagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
|| |||  ||   |    |||  | |  ||| |  ||   | || | |      || | ||  |   ||   |    |||||| | |  |||| || || ||||| ||||| |||||||||||||| ||||| ||||| || |||||||| ||  | |||||||||
gtgagtaattttgttcc-tggatttaaatttttttttgcgtgtcatttggaatattatgatgctaaataggatctgctttcttatttgtagAATCTCTATTGGGCCGATAGTGGTGATTTAGTGACAATTGCAAGTGACACCTCATTCTACATTTTGAAGTACAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g11840.2 (Oryza sativa), 3'ss of exon 4
----gtaagtgcttgcatgaggtggcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
    |||| |   | ||||   |   ||    |||  |  |   ||      |  || | || | |    |    ||| |  | ||| |||| || || ||||| ||||| |||||||||||||| ||||| ||||| || |||||||| ||  | |||||||||
gtgagtaattttgttcatggattcaaatttattttgcgtgtcatttggaatattatgatgctaaataggatccgctttcttatttgt-agAATCTCTATTGGGCCGATAGTGGTGATTTAGTGACAATTGCAAGTGACACCTCATTCTACATTTTGAAGTACAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 13
gtaagtgcttgcatgaggtggcatcagctttctgcttttatttcttcttact---gtttcttatttttgttaaatttttcttgtgtc---agAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
      |   |    | ||   ||      |  | |   | || |   |      ||||  ||||    ||   ||| || |||||    ||||  | |||||||||||||| |||||  ||||  | || || ||||||||||||||||| ||||| |||||||||
------gtgagtcaaaagtattatttttccttgggtggaaattttgtatgtatgagtttaatattaaccttttgtttatcatgtgtttatagAATGTTTACTGGGCTGATAGTGGTGACCTAGTTGCAATAGCAAGTGATACATCATTCTACATCCTCAAGTACAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G095348_T02 (Zea mays), 3'ss of exon 12
-----gtaagtgct-tgcatgaggtggcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
       ||||  | |   |     ||    |  ||| |   |  | |   |     |  |  | |  |||  |  ||  | | | | | ||||| | |||||||||||||| |||||  ||||  | || || ||||||||||||||||| ||||| |||||||||
gtgaatcaagtattattttttcttgggtggaaattttgtatgtaaaatgtatgagtttactattaaccttttctttatcatgcatttat-agAACGTTTACTGGGCTGATAGTGGTGACCTAGTTGCAATAGCAAGTGATACATCATTCTACATCCTCAAGTACAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G124886_T01 (Zea mays), 3'ss of exon 13
-----gtaagtgcttgcatga--ggtggcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
     | || |  || | | |    |   | |   ||| | | || ||  | | | |    || |     |    | || ||||||     |||| || ||||||||||| || ||||||||||| || ||||| |||||||| |||||||| ||  | || || |||
gtaatggaatttgttaccttattatttcaaacctttttttacattcatgccatttgaaatgttgtgccactcaaaacatgtttctttgtgtagAATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G141587_T02 (Zea mays), 3'ss of exon 13
---------------------------gtaagtgcttgcatgaggtggcatcagctttctgcttttatttcttcttactgtttcttatttt----tgttaaat-----ttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
                            ||| | |   | ||   | ||||   |  | ||    || |     ||    |||   || ||       | ||      |||  |||||| |||| || ||||||||||| || ||||||||||| || ||||| |||||||| |||||||| ||  | || || |||
gtaatgacatttgacatttgttgccttataatttcaaacctggttttgcatttccaatgtgaaggtaatggcatttgacatttgaaatgttgtgccactgaagacatgtttctttgtgt-agAATCTTTACTGGGCTGACAGTGGTGATTTAGTAACAATTGCAAGTGATACGTCATTCTACATTTTGAAATATAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 17
-------------------------------------------------------------------------------------------------gtaagtgcttgcatgaggtg-----gcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
                                                                                                   |  | |||   |||  |      |||  |||    || |  |  |    |||| |   | |||   || ||   | ||   ||| |||||| || || ||||| || || |||||| ||||  | ||||| ||||||||||||||||| |||||||||| ||||
gtaagtgcttatataccagaagtagatccattagtttctacaagaaaatagtttataggttacgttttcagtaatatttttattggagaaatacaaaagagttccttatctgaaatttaaacgcaaaagcagattggtactgctc--gcttattcacttttaacgtttttgtttattcaatgtttcagAATCTTTATTGGGCGGACAGTGGTGATCTAGTTGCAATTGCCAGTGATACATCATTCTACATCCTTAAGTTCAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------------------------gtaagtgcttgcatgaggtggcatca--gctttctgcttttatttcttcttact-gtttcttatttttgttaaatttttcttgtgt--------cagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
                                                     |  |   | |    |  |   ||||  || ||| | ||    || | ||   | ||||||| | |   ||  | | ||  |   |        ||||| || || |||||||| || |||||||||||  | ||||||||||| ||||||||||| ||| | || | ||| 
gtatcccagttaacttggctcagtttattgtaagaagtttacttcaagacatatttggaatagtggaaactaatatcattgccttcagtttgaggttttcctcgtttgtttcttctctaatttgtagtgttgctacataacgtttgcagAATCTATATTGGGCTGACAGTGGTGATTTAGTAGCCATTGCTAGTGACACATCATTCTACATCTTGAAATTCAAC

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------------------gtaagtgcttgcatgaggtggcatcagctttctgcttttatttct---tcttactgtttcttatttttgttaaattttt-cttgtgt----------cagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
                                          | | |  || |      || | | | | || |  ||| | ||     |  | |   ||  | | |||  ||| | ||| ||    |          ||||| || || |||||||| || |||||||||||  | |||||||||||||| |||||||| ||| | |||||||||
gtatccaattaccttgtctctgttgtgagaagttagcattcatcacttttttccaattctgtcgtta-cattttattttcagttgaaagttgtcccaattagtgtctttactaactctttactcccatgaaaaatttgcagAATCTTTATTGGGCTGAAAGTGGTGATTTAGTAGCCATTGCTAGTGATACGTCATTCTACATCTTGAAGTACAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 13
gtaagtgcttgcatgaggtggcatcagctttc-------tgcttttatttcttcttac--------------tgtttcttatttttgttaaatttttct---tgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
|||||  ||  ||||| |     |  |||  |       || ||| ||  |    | |              |||| ||| ||| | ||   ||||| |   | | ||||||||| || ||||||||||| || ||||| ||| | ||||| |||||||||||||| || ||||| |||||||||
gtaagcactaacatgatggcctgttggctaccgtggtattgttttcatgccacactgcaggaattgattaaatgttccttttttcttttctttttttttcactatttcagAACCTCTATTGGGCTGATAGTGGGGATTTGGTGGCCATTGCCAGTGATACATCATTTTACATCCTGAAGTACAAT

upper sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv11s0016g04180.t01 (Vitis vinifera), 3'ss of exon 13
---------gtaagtgcttgcatgaggtggcatcagctttctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
           ||  |||| | | |      | ||| |||  ||    |      || |  |||  ||  ||| | |    |||   | | |||||| || || ||||||||||| |||||||||||| | ||||| |||||| ||||||| || ||| | |||||||||
gcatgttctcaaaaagcttacttcaca-attaccaggttttggccac-agagaaactaatagttcatttctttgggtgg--tttcaatatttcagAATCTTTATTGGGCTGATAGTGGTGATTTAGTGGCAATTGCAAGTGATTCATCATTTTACATCTTAAAGTACAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgcttttatttcttcttactgtttcttatttttgttaaatttttcttgtgtcagAACCTGTACTGGGCTGATAGCGGTGATTTAGTGACGATTGCTAGTGATACATCATTCTATATCCTTAAGTACAAT
             ttcttac  putative branch site (score: 2)
                                        tttttcttgt  putative PPT
                ttactgtttcttattt  TA-rich tract