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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatcactctctttatcaactattagtgtattgtgtggattttagagagaagttagcattgcttcctttctgtgttgaggctttttcttttcttgttgtagCTCCAATGCATGGTTTTGCATTTTGGTTCGACGTTGAATTCAGCGGACCGGCCTCTTCACCTGCCAAGAATACTAGTGAAACCAGTATTGCTAGTGGTTC

Basic information

species Arabidopsis thaliana
transcript AT3G20020.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: LOC_Os10g34740.1 (Oryza sativa), 3'ss of exon 10
-----------------------------------------------------------------------gtatatcactctctttatcaactattagtgtattgtgtggattttagagagaagttagcattgcttcctttctgtgttgaggctttttcttttcttgttgtagCTCCAATGCATGGTTTTGCATTTTGGTTCGACGTTGAATTCAGCGGACCGGCCTCTTCACCTGCCAAGAATACTAGTGAAACCAGTATTGCTAGTGGTTC--
                                                                         | |||  || |     |  |      | | || |       ||   | |||  |     || | |   ||| |  ||     | || | || || || |||||||| ||||||||||||||||||||||||| || || || |  ||||| |            |||||||  | ||  |||||| |  |   |  ||  |  
gtaacttgtactagtttatttttttacatgtgcattttggtataggtggcaaccaactatgtaatagtttccaacatctgtcccccccccccccccctctcttttttacttcacttgctgggaaactgttgctgatcctgctctcttctg-----tcttgtcttgttattttagCTCCATTGCATGGTTTTGCATTTTGGTTCGATGTCGAGTTTAATGGACCAGTGCGCCAGAGATCCAAGAA-GCAAGC-AAACCAATGCTTGGATGGGAACAC

upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GRMZM2G160752_T03 (Zea mays), 3'ss of exon 10
gtatatcactctctttatcaactattagtgtattgtgtggattttag--agagaagttagcat--tgcttcctttctgtgttgaggctttttcttttcttgttgtagCTCCAATGCATGGTTTTGCATTTTGGTTCGACGTTGAATTCAGCGGACCGGCCTCTTCACCTGCCAAGAATACTAGTGAAACCAGTATTGCTAGTGGTTC-
         ||| | |    | | |   | |||  ||| | | |||   || | || | | ||  |  | ||  ||    |   |   | || | || || || |||||||| ||||||||||||||||||||||||| ||||| ||||  ||||| |   |  ||     | |  |  | |   |  | |  ||||   | |     
-------gatctttgtcgtgattgtgtttatatcatgtaggtgttacttagtgtagatgggataatagtgccaatcatgctctcgttatcttgtgttatttttttagCTCCATTGCATGGTTTTGCATTTTGGTTCGATGTTGAGTTCAATGGACCAGTA-CGCCAGAAATCGAAGAAGCAACCTAGTCAATCATTGGATGAGAACAC

upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA20G00220.1 (Glycine max), 3'ss of exon 10
--------------------------------------------------------------------------------gtatatcactctctttatcaactattagtgtattgtgtggattttagagagaagttagcattgcttcctttctgtgttgaggctttttcttttcttgttgtagCTCCAATGCATGGTTTTGCATTTTGGTTCGACGTTGAATTCAGCGGACCGGCCTCTTCACCTGCCAAGAATACTAGTGAAACCAGTATTGCTAGTGGTTC
                                                                                  | |   |||| || |||| | | |    |      |   | ||  |    |  | | |||    |     |   ||||    | ||   |  ||  |  ||| ||| |||||||||||||||||||||| ||||||||||| |  || |  ||     || |  ||||  ||  |     |||     ||| |     |  
gtatcctccttttgtcttttcttccttttcactggtgtattgagcctcaggctgtcatcatcatgtttgcttgttagttttcacagtgctctgtt-atcatccaatttactgacaaattattgtttaatgagatcttgtattatcacagcatta-attgaaatctgtttcctgttttctccagCACCACTGCATGGTTTTGCATTTTGGTTTGACGTTGAATTTAATGGGCATGCAATACCATCAACCAATTATCATTCGACAACTTCATTTGTTGACAATCA

upper sequence: AT3G20020.2 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA0048S00320.1 (Glycine max), 3'ss of exon 9
gtatatcactctctttatcaactattagtgtattgtgtggattttagagagaagttagcattgcttcctttctgtgttgaggctttttcttttcttgttgtagCTCCAATGCATGGTTTTGCATTTTGGTTCGACGTTGAATTCAGCGGACCGGCCTCTTCACCTGCCAAGAATACTAGTGAA--ACCAGTATTGCTAGTGGTTC
  | |   |||| ||  |   | |||     |     |    ||||  ||| |  | | |||    |     |   ||||    | ||  ||  ||  |  ||| ||| | |||||||||||||||||||| ||||||||||| |  || |  ||    ||| || ||||   ||  | | ||  ||     ||| |     |  
--acagtgctctgttcttatccaatttactgacaaattattgtttaatgaggatcttgtattatcacagcatta-attgaaatctgtttcttgttttctccagCACCATTACATGGTTTTGCATTTTGGTTTGACGTTGAATTTAATGGGCATGCAATATCATCTACCAAT--TATCAATCAACTACTTCATTTGTTGACAATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaagttagcattgcttcctttctgtgttgaggctttttcttttcttgttgtagCTCCAATGCATGGTTTTGCATTTTGGTTCGACGTTGAATTCAGCGGACCGGCCTCTTCACCTGCCAAGAATACTAGTGAAACCAGTATTGCTAGTGGTTC
                                  ctttttcttttcttgt  CT-rich tract
                                   tttttctttt  TA-rich tract