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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagctagaatcgtctaacttgcttagccttagaatatctgaggattggttctcatttttaccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC

Basic information

species Arabidopsis thaliana
transcript AT3G57410.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 6
-----gtaaagctagaatc----gtctaa--cttgcttagccttagaatatctgaggattggttctcatttttaccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC
     |  |  ||||||||     |||||  ||| |||  || |    ||  | | |     |  | | || |||     ||| ||||| |||||||||||| |||||||||||||| | ||| | ||||||||  ||||||||||||||||| | ||||| || ||||| |||||||| |||||||
gtaatgctattctagaatctagaatctaattcttacttctccatttgttagttaaagtggattcattaattctacaaatatctccagGAGTTTGTTGCTAGTCAAAATAGGCCAAAGTCTACAAGGATAACCCGGATTATTCAAGGTTATGAGACGCATTCATTTAAGTCCAACTTTGATTCTTGGC

upper sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA10G21350.2 (Glycine max), 3'ss of exon 7
gtaaagc-----tagaatcgtctaacttgcttagccttagaatatctga-ggattggttc--tcatttttaccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC
|||| ||     ||||||| | |||  |  ||    |     | | ||    ||||| |   | | || ||||     || ||||| |||||||| ||  |||||||||||||| | ||| | ||||||||  ||||||||||||||||||| ||||| || ||||| |||||||| |||||||
gtaaggccattgtagaatc-tataatctaattcatttccatttgtttgttaaattggattcattaattctaccaatacctccagGAGTTTGTTGCAAGCCAAAATAGGCCAAAGTCTACAAGGATAACCCGGATTATTCAAGGTTATGAGCCACATTCATTTAAGTCCAACTTTGATTCTTGGC

upper sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA03G29280.1 (Glycine max), 3'ss of exon 7
gtaaagctagaatcgtctaacttgcttagccttagaata-tctgaggattggttctcatttttaccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC
|||| ||||        |       ||   | ||   |  | ||| |    ||  | | | ||||     | | ||||| ||| |  | ||| |||| ||||| ||  | ||| | || ||| |  ||||||||||||||||| | ||||| || ||||| |||||||| |||||||
gtaatgctattgcaagttccaccatttcttcatatgttggtttgaagtgaagtcattaatgttactaatatgttcagGAGTTTCTCACAAGTCAAAAAAGGCCGAAATCTACAAGGATTACCAGAATTATTCAAGGTTATGAGACACATTCGTTTAAGTCCAACTTTGATTCTTGGC

upper sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA19G32010.1 (Glycine max), 3'ss of exon 8
gtaaagctagaatcgtctaacttgcttagccttagaata-tctgaggattggttctcatttttaccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC
|||| ||   ||| |          ||   | ||   |  | ||| |    ||  | | | ||||     | | ||||| ||||| || ||| |||| ||||| ||  | ||| | || ||| |  | ||||||||||||||| | |||||||| ||||| |||||||| | |||||
gtaatgc---aattgcaagttccatttcttcatatgctggtttgaagtggagtcattaatgttactgatatgttcagGAGTTTGTCGCAAGTCAAAAAAGGCCGAAATCTACAAGGATTACCAGAATCATTCAAGGTTATGAGACACATTCTTTTAAGTCCAACTTTGATTTTTGGC

upper sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 7
gtaaagctagaatcgtctaacttgcttagccttagaat--atctgaggattggttctcattttta-ccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC
       ||||| | | | |     ||| || |    |  || | |  |     |||||| |  |   ||| ||  ||||| |||||| ||||  ||||||| ||||||||||| ||  ||||||| ||||||||||| |||||| | ||||| |||||||| |||||||| |||||||
------gtagaagcttatcatccatttatccatgttctttatataacaacgaactctcatctccaattttcttcctcagGAATTTGTTTCTAGCCAAAATAGACCAAAGGCAACTCGTGTAACCCGGGTTATTCAAGGGTATGAGACACATTCATTCAAGTCCAACTTTGATTCTTGGC

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|124911284|gb|EH985364.1|EH985364
EST:     AGAAAAACTGCTATCCAAGCTGCTGAG                         GATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTT
genomic: AGAAAAACTGCTATCCAAGCTGCTGAGgtaaagctag ... tcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgcttagccttagaatatctgaggattggttctcatttttaccttcctctacagGATTTTGTTGCTAGTGAAAATAGGCCAAAGGCAACACGCATAACCCGTGTTATTCAAGGTTATGAGCCCCATTCTTTCAAGTCTAACTTTGACTCTTGGC
                              ttctcatttttacctt  CT-rich tract
          ttagaatat  TA-rich tract