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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtcacacaaattttaactcaaatttagaatgtgatgaacataattgttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA

Basic information

species Arabidopsis thaliana
transcript AT4G22540.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 6
gtatgtcacacaaattttaactcaaatttagaatgtgatgaacataattg---ttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
||    |   || |   | | |   ||  |   ||     |  | ||||    |   ||| |||||         | |  |    |  | ||  |  || |||| |||||||||||||||||  | |||||||||||| |||||| ||| ||||||||||||| ||||| |||| |  |||||||||||||||| ||||| |
gtggtcctatcatacgctcagttgcatacaatgtgcaggcatgacaattaacctgccaatatttactgttctctcaaacaactgattatgtg--tgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTCAAGGTAGAGGTTGGAAGTTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 6
--gtatgtcacacaaattttaactcaaatttagaatgtgatgaacataattg---ttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
     ||       | | ||  ||||||   |   ||     || | ||||    |   ||| |||||         | |  |    |  | ||  |  || |||| |||||||||||||||||  | ||||||||||||||||||| ||| ||||| ||||||| ||||| |||| |  |||||||||||||||| ||||| |
tttggtggggttttactgttttctcaaac--aatgtgcaggtaagacaattaacctgccaatatttactgttttctcaaacaactgattatgtg--tgaaacagGTGAGTCACCATCCAACTGTCGTTGCCTGCCACTGTGAAGGTAGAGGTTGGAAATTTTGGGCTGACAGTAACATTCGGTCAAAGTTTTGGGGAAGGTCAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G03420.2 (Glycine max), 3'ss of exon 7
----gtatgtcacacaaattttaactcaaatttagaatgtgatgaacataattgttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
      || |   |   |||||     |    |||  | | ||      ||||  |  |      |  |    |   |          || ||  |  || |||||||||||||||| ||| | || ||||||||||| ||||||| ||| ||||||||||||| |||||| ||| ||   |||||||||||||| ||||| |
aattcgatcttgtatgtatttttgtctag--ctagtct-taatatgtgcaattcatcaacctgccaatatatttcacgttccctgacattatgtgtgaaacagGTCAGTCACCATCCGACTCTCATTGCCTGCCACTGCGAAGGTAGAGGATGGAAGTTTTGGGCTGACACCAACATCCATTCAAAGTTTTGGGGAAGGTCAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 5
gtatgtcacacaaattttaactcaaatttagaatgt---gatgaacataattgttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
  ||   |    | | |  | |    | |||   ||    ||      ||||  |         |  |                   || ||  |  || |||||||||||||||||||| | || ||||||||||| ||||||| ||| ||||||||||||| |||||  ||| ||   |||||||||||||| ||||| |
--attcgatcttagtatgtatttttctctagctagtcttaatatgtgcaattcatcagcctgccaatatattcgatattcgctgacattatgtgtgaaacagGTCAGTCACCATCCAACTCTCATTGCCTGCCACTGCGAAGGTAGAGGATGGAAGTTTTGGGCTGACAGCAACATCCATTCAAAGTTTTGGGGAAGGTCAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 3'ss of exon 4
gtatgtcacacaaattttaactcaaatttag-aatgtgatgaacataattgttagaatctttac--caagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
   | |   |  ||||    |   ||||    |    |||  |  |   | | |  ||  | |   ||  ||       | |  |  | ||  ||  || |||| ||||| || |||||  | || |||||||| |||||||||||||||||||| || |||| ||||| ||||||  |  |||| ||||||||  | || |
--ctcttctatcaattaagtcctgaattccttagcaagatttatttttctctgatcattgtcatttcatcaccccctttttttgtgttgtttattgaaacagGTTAGTCATCACCCAACACTCATTGCCTGCCATTGTGAAGGTAAAGGGTGGAAATTCTGGGCTGACAGTAACCTACGAACAAAATTTTGGGGACGATCAA

upper sequence: AT4G22540.3 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtcacacaaattttaactcaaatttag-aatgtgatgaacataattgttagaatctttac--caagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
   | |   |  ||||    |   ||||    |    |||  |  |   | | || ||  | |   ||  ||       | |  |  | ||  ||  || |||| ||||| || |||||  | || |||||||| |||||||||||||||||||| || |||| ||||| ||||||  |  |||| ||||||||  | || |
--ctcttctatcaattaagtcctgaattccttagcaagatttatttttctctgagcattgtcatttcatcaccccctttttttgtgttgtttattgaaacagGTTAGTCATCACCCAACACTCATTGCCTGCCATTGTGAAGGTAAAGGGTGGAAATTCTGGGCTGACAGTAACCTACGAACAAAATTTTGGGGACGATCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taattgttagaatctttaccaagactagagaatatcattcttttggttataatagGTCAGTCACCATCCAACTGTTATCGCCTGCCACTGTGAAGGTAAAGGGTGGAAGTTTTGGGGTGACACTAACCTCAGGTCAAAGTTTTGGGGGAGGTCGA
                              aatatcattctttt  TA-rich tract