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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaagatccttttctcttcctgttttagtaaagtaattccgtttttgttgcatataaagctgcaaaatgaccttcctgatttcaacttgatactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCAGATATGCACTTTTTCTCTGGGGATTCAGCAGTTGCAAAATCTAATCAG

Basic information

species Arabidopsis thaliana
transcript AT4G13730.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA05G28660.1 (Glycine max), 3'ss of exon 4
aaaagatccttttctcttcctgttttagtaaagtaattcc---gtttttgttgcatataaagctgcaaaatgaccttcctga-------tttcaacttgatactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCAGATATGCACTTTTTCTCTGGGGATTCAGCAGTTGCAAAATCTAATCAG
          ||  |  |  | |   | | |  ||| ||    | |  ||    |||  |  |||   || | |  |  |||        | |  |||   | | |  |||| |||||  |  | || ||||| || || ||||| | ||| |||||||| |||||||||||||||||||| |||||   | |||||||||||||||||
----------ttcattattgtatcacaattatataaatctcatgctaatgccctataatactctgtgcaaaggctgttgtgaagcaaatctccttctttgcattttgtagGATACAGAGATCATCGACCAAATTGACCGAGATGTAAAGCGCACTCATCCTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAG

upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 4
aaaagatccttttctcttcctgttttagtaaagtaattccgtttttgttgca-tataaagct--gcaaaatgaccttcctga-------tttcaacttgatactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCAGATATGCACTTTTTCTCTGGGGATTCAGCAGTTGCAAAATCTAATCAG
          |   |  |  | |   | | |  ||| ||   |  |  |||| |||||  ||  |   |||| |  |  |||       || |  |||   | | |  |||| |||||  |  | || ||||| || || ||||| | ||| |||||||| |||||||||||||||||||| |||||   | |||||||||||||||||
----------tccattattgtatcacaattatataaatctcatgctaatgcactataatactctgtgcaatggctgttgtgaagcaaatttccgtctttgcattttgtagGATACAGAGATCATAGATCAAATTGACCGAGATGTAAAGCGCACTCATCCTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAG

upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA18G00430.2 (Glycine max), 3'ss of exon 4
aaaagatccttttctcttcctgttttagtaaagtaattccgtttttgttgcatataaagctgcaaaatgaccttcctgatttcaacttgatactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCAGATATGCACTTTTTCTCTGGGGATTCAGCAGTTGCAAAATCTAATCAG
              |  | || | |   | | |  ||  | |  ||    || | |      |   ||| |  || |  ||||   |||       | ||||||||||  |  | || || || || || ||||| |  ||||||||||||||||| ||||| |||||||| |||||     |||||||||||||||||
-------------gtactactatctctattatgctatcacctacttacaacacaca------ctttatgcctctctttctttc--tttgtc-----ttagGACACAGAGATCATAGACCAGATTGACCGAGATGTCAATCGTACTCATCCAGATATACACTTCTTCTCTGGTGATTCTCTTTTTGCAAAATCTAATCAG

upper sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA11G36520.1 (Glycine max), 3'ss of exon 4
aaaagatccttttctcttcctgttttagtaaagtaattccgtttttgttgcatataaagctgcaaaatgaccttcctgatttcaacttgatactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCAGATATGCACTTTTTCTCTGGGGATTCAGCAGTTGCAAAATCTAATCAG
           ||||  | || | |   |    |  |  |   |   ||||| | | |  |      || |  || |  |||||   |       || ||||||||||  |  | || || || || || ||||| | ||||||||||||||||||  |||| |||||||| |||||     |||||||||||||||||
----------gttctacttctatctctatgctatgctatcacctac-ttgcaaacacatttc-----tgccactctttctttcattgt-------tttagGACACAGAGATCATAGAGCAGATTGACCGAGATGTCAAGCGTACTCATCCAGATATAGACTTCTTCTCTGGTGATTCTCATTTTGCAAAATCTAATCAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|86076731|gb|DR372488.1|DR372488
EST:     ATCATCCCTTAAGTCTTGGAACAACAAGCTTATGGAATAATTTTTTCAAG                         GACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCA
genomic: ATCATCCCTTAAGTCTTGGAACAACAAGCTTATGGAATAATTTTTTCAAGgtattcagat ... tactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgcatataaagctgcaaaatgaccttcctgatttcaacttgatactgttcagGACACAGAAGTTTTGGAACAAATAGAACGCGATGTGATGCGTACTCATCCAGATATGCACTTTTTCTCTGGGGATTCAGCAGTTGCAAAATCTAATCAG
      atataaa  TA-rich tract