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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatgttttcttccaccacattttatgctttgcaaacgaccaagtattccggtgggaaagagagcatgcacctaaagtttcatttattcatgcttttctgaacattctgtagttattgaagttataaaatttattcttttttcaatctttcccccccttgaatgcagGCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAACAGTGT

Basic information

species Vitis vinifera
transcript Vv09s0002g04120.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g04120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G02020.1 (Glycine max), 3'ss of exon 5
gtgatgttttcttccaccacattttatgctttgcaaacgaccaagtattccggtgggaaagagagcatgcacctaaagttt------catttattcatg---cttttct----gaacattctgtagttattgaagttataaaatttattcttttttcaatctttcccccccttgaatgcagGCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAACAGTGT
|||||||||        ||||  ||||   |        || |||   | | | |  |  || ||||||||| ||||||||       ||||||| |||   |||||||     ||||||||  |||||| | |||||||||||||  |   ||||   |||   ||     || |||||||| || |||||||| |||||||||| |||||||  |||||||||||| ||||||| |
gtgatgtttct------cacacattatttat--------actaagctattcagagtcagtgaaagcatgcacttaaagtttgaccaatatttattgatgatgcttttctccaaaaacattcttcagttatgggagttataaaattttattcctttt---tctcctccttgaatggatgcagGCACTCAGCTCTCCTTACTTGGGCAGTGCATCAAAAAACATGAGGAATCAACAGTCT
















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|110709243|gb|EE084535.1|EE084535
EST:     TCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAG                         GCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAA
genomic: TCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAGgtgatgtttt ... ttgaatgcagGCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAA
EST: gi|110398271|gb|EC964511.1|EC964511
EST:     TCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAG                         GCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAA
genomic: TCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAGgtgatgtttt ... ttgaatgcagGCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAA
EST: gi|110379188|gb|EC944367.1|EC944367
EST:     TCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAG                         GCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAA
genomic: TCTTGTTAGAAGCTATTGGGTATATCAGATTCCTTCAGGGTCAAATTGAGgtgatgtttt ... ttgaatgcagGCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattgaagttataaaatttattcttttttcaatctttcccccccttgaatgcagGCCCTTAGCTCTCCGTACTTGGGCAATGCATCAGGAAACATGAGGAACCAACAGTGT
                 tttattcttttttcaa  CT-rich tract
      aagttataaaatttat  TA-rich tract