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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG

Basic information

species Arabidopsis thaliana
transcript AT3G19960.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: LOC_Os10g34710.1 (Oryza sativa), 3'ss of exon 14
gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
                              |       ||  ||   |  ||||  | |   | |      |   ||| |  | | |||  |  ||| | ||    || || |   || | | |         ||||||||  |  | ||||||||||||||| ||| |||||| ||||||||||| || || ||| ||| ||| ||||| || 
-----------------------------gcttttctgtgctttttgttaactaaatggaagacttggtaggtgttactaattcacagcagagatttttctc---taaattttctctgatgtcttcgaa----cagGAATACGTTGAAGATGGCATTGACTGGGCAAAGGTTGAGTTTGAGGACAATCAGAACTGTTTGAATCTCTTTGAGAAA

upper sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA10G43230.1 (Glycine max), 3'ss of exon 13
gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
                                         | |  || |   |  |     |   |  ||  | |||  || |||| || ||| ||   | || |  |||  |  ||||     |  ||||||||||||||||||| ||||| ||||| ||| | |  ||||| ||||| ||||| ||| |||| || | |||||||||||||
---------------------------------aagttgaaagttgatgtctaaaatgaaaaaaaaagctattattacctcc-aaaaactaaacatttgcttatgcctgttgct--tgtttacaattttgtttcagGAATATATCCAAGATGGAATTGATTGGGCTAAAGTTGAATTTGAAGACAATCAAGATTGCCTTAATCTTTTTGAAAAG

upper sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 15
gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
                            ||| |    |||  ||   | ||  |  |     |   |  ||  | |||  || |||| || ||| ||   | || |  |||  |  ||||     |  ||||||||||||||||||| ||||| ||||| ||| | |  ||||| ||||| ||||| ||| |||| || | |||||||||||||
---------------------------gtactga---atgcctt---tgtataaaatgaaaaaaaaatctatgattacctcc-aaaaactaaacatttgcttatgcctgttgct--tgtttacaattttgtttcagGAATATATCCAAGATGGAATTGATTGGGCTAAAGTTGAATTTGAAGACAATCAAGATTGCCTTAATCTTTTTGAAAAG

upper sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 15
gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
      | | ||||    |     |  || |    ||| ||||| ||| | ||     ||   || |   | |   || |   || | |||   |   || ||  ||   |  | |||  | |       |||||||||||||| || ||||||||||||||| | |  ||||| ||||| ||||||||| | || || | ||||||||| |||
---gtatggatcctgcggagtctga--atgcttaaacaagtattgaatgtcct----tgtatcttaaatgaaagaaactattgaatacctc---tgaatgccaaacat-ctgcttatgcacgtggattgatttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG

upper sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA09G42180.1 (Glycine max), 3'ss of exon 13
gtaaagttgctcctttataaatgaactatacgggcacatgtattaa-atatactaggtcgtgcattcacatagaactacaacctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
      | | ||||  | |     |  || |    ||| ||||| |  |    |     |       | || |||   |   || |||||| ||  |      || || |   || ||              ||||||||||||| || ||||||||||||||| | |  ||||| ||||| ||||||||| | || || | ||||||||| |||
---gtatggatcctgcagagtctga--atgcttcaacaagtattgatgtccttttaaatgaaggaaaatattgaatacc--tctgaaagctaaatatctgcctatgcacgcggttgat--------------ttcagGAATATATTCAAGATGGCATTGACTGGGCTAAAGTTGAATTTGAAGACAACCAAGACTGCCTTAATCTTTTTGAGAAG

upper sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 14
gtaaagttgctcctttataaatgaactatacgggcacatgtattaaatatactaggtcgtgcattcacatagaactacaacctaaaagct-caactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
                                 |  |||   || ||| | ||   || |    |     |||||||     |   || |   ||   |  |  |  ||  |||| || |      | || ||||||||||||||||| ||||| ||||||||||  || ||||||||||||||||| ||| | ||||| | ||||||||| |||
---------------------------------gtgcat---tttaatctccttattcctat-ctagtgaagaactatcttttgctagatatgacaacccttgttttaatatattgatatcaaaatttctttttcagGAATATATCCAAGATGGAATTGACTGGAATAGAGTTGATTTTGAGGACAATCAAGACTGTCTAAATCTTTTTGAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctaaaagctcaactttctgtcatccaagttattaatgttctttctactgtttcagGAATATATCCAGGATGGCATTGACTGGACAAGGGTTGATTTTGAGGACAACCAAAATTGTCTGAGTCTTTTTGAAAAG
                             tattaat  putative branch site (score: 2)
                                     ttctttctactgtttc  CT-rich tract
                            ttattaatgttcttt  TA-rich tract