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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttcaacttcaatagagtagctgttcttatcattggatttgcacttagttaccatattgatttcaagttgtcattatctttggcagCCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTACAGATTTGATCTAGATGACAGGCGCCCACAGAGGGAG

Basic information

species Vitis vinifera
transcript Vv01s0011g04360.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g04360.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G25800.1 (Glycine max), 3'ss of exon 4
gtaacttcaacttcaatagagtagctgttcttatcattggatttgcacttagttaccatattgatttcaagttgtcattatctttggcagCCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTACAGATTTGATCTAGATGACAGGCGCCCACAGAGGGAG
                                                                         ||  || | | |||||||||| | ||||  || ||||||||||| || ||||| ||||| ||||| ||||||| |||| | |||||  |||| || |||||||||
-------------------------------------------------------------------------gtatttgtttgtggcagccatatgtatgctaaggttgttgtcttcagCAAGGTCCCACTTCCAAATTACAGATATGATTTGGATGATCGGCGGCCTCAGAGGGAG
















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|30321827|gb|CD005089.1|CD005089
EST:     CGTGATTTCGAGCAAATAGCTATTTTGGCAAGCAGAATGGGTTTGTATAG                         CCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTA
genomic: CGTGATTTCGAGCAAATAGCTATTTTGGCAAGCAGAATGGGTTTGTATAGgtaacttcaa ... tctttggcagCCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTA
EST: gi|30321623|gb|CD004885.1|CD004885
EST:     CGTGATTTCGAGCAAATAGCTATTTTGGCAAGCAGAATGGGTTTGTATAG                         CCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTA
genomic: CGTGATTTCGAGCAAATAGCTATTTTGGCAAGCAGAATGGGTTTGTATAGgtaacttcaa ... tctttggcagCCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTA
EST: gi|27581202|gb|CB003897.1|CB003897
EST:     CGTGATTTCGAGCAAATAGCTATTTTGGCAAGCAGAATGGGTTTGTATAG                         CCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTA
genomic: CGTGATTTCGAGCAAATAGCTATTTTGGCAAGCAGAATGGGTTTGTATAGgtaacttcaa ... tctttggcagCCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attggatttgcacttagttaccatattgatttcaagttgtcattatctttggcagCCATCTATATGTAAAAGTTGTTGTCTTTAGTAAGGTTCCACTGCCAAACTACAGATTTGATCTAGATGACAGGCGCCCACAGAGGGAG
                       tattgat  putative branch site (score: 3)
                                          ttatcttt  putative PPT
                      atattgattt  TA-rich tract