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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcacttttgcttgctactgtggaagacagaattaaaattgttatttttttggcagtaaactaagtaattggatattttattatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAGAGGCTAATCTTGTAAAAGATTTTGACAAA

Basic information

species Vitis vinifera
transcript Vv01s0011g02430.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G23210.1 (Glycine max), 3'ss of exon 1
gtactcacttttgcttgctactgtggaagacagaattaaaattgttatttttttggcagtaaactaagtaattggatattttattatc-ttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAGAGGCTAATCTTGTAAAAGATTTTGACAAA
      | |     ||  |  | ||| | ||    ||| |    ||     |||||||  ||| | | |    ||  | ||| || |  || ||||||| |||||||||||||| ||||  ||||||||||| || ||||| |||||||| ||||||||||| ||||||||||| 
----gtattgcaaattatttttctgggaaactt--ttacagagattccaaatttggcatcaaatttacttga-ggccactttgtttttattacagCTGAAGAGATCAAAGAACTTTGGGCAGAGTATGAAAACAATTCTTCTTTAGAGGCAAATCTTGTAAAGGATTTTGACAAG

upper sequence: Vv01s0011g02430.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G14300.1 (Glycine max), 3'ss of exon 4
gtactcacttttgcttgctactgtggaagacagaattaaaattgttatttttttggcag--taaactaagtaattggatattttattatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAGAGGCTAATCTTGTAAAAGATTTTGACAAA
||| |     ||  ||  | || |||||      |   | |||   | |||     ||   | |  || || | |   | ||||  | | || ||||||| |||||||||||||| ||||| ||||||||||| || |||||  ||||||| |||||||| || ||||||||||| 
gtattgtaaattattt--ttct-tggaattttttacagagattccaaatttggcatcaaatttacttaggtcacttttttttttcctttattacagCTGAGGAGATCAAAGAACTTTGGGAAGAGTATGAAAACAATTCTTCTGTAGAGGCAAATCTTGTTAAGGATTTTGACAAG
















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|351054374|gb|FQ450457.1|FQ450457
EST:     GCGGGCAGCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAG                         CTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
genomic: GCGGGCAGCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAGgtactcactt ... tatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
EST: gi|110390616|gb|EC955535.1|EC955535
EST:     GCGGGCAGCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAG                         CTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
genomic: GCGGGCAGCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAGgtactcactt ... tatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
EST: gi|110424006|gb|EC990359.1|EC990359
EST:     GCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAG                         CTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
genomic: GCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAGgtactcactt ... tatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
EST: gi|56408738|gb|CX016990.1|CX016990
EST:     GCGGGCAGCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAG                         CTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG
genomic: GCGGGCAGCTTTAAAGGAAATGTGTGAAGTTCTTGGTGGAGGGATTAGAGgtactcactt ... tatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgttatttttttggcagtaaactaagtaattggatattttattatcttgcagCTGACGAGATCAAAGAACTATGGGAGGAGTATGAAAATAACTCTTCCTTAGAGGCTAATCTTGTAAAAGATTTTGACAAA
                                       ttttatt  CT-rich tract
                    taaactaagtaattgg  TA-rich tract