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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtatagaatcatcaagaagttaataacctactgataaaaattaagcgactgtccatcttgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTATGTTATTTTCCAATGGGTCATCCACGCTTGTGGGTTTTCATG

Basic information

species Vitis vinifera
transcript Vv07s0005g02170.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G01240.1 (Glycine max), 3'ss of exon 6
-------gtaagtatagaatcatcaagaa--gttaataacctactgataaaaatt-aagcgactgtccatcttgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTATGTTATTTTCCAATGGGTCATCCACGCTTGTGGGTTTTCATG
         |   | |  |  || |||||  ||||   || |     |     || ||   ||  |   |||| |||| ||||| || || |||||  |  | ||||| |||||||| |||||||||  |||  | ||||||||||||||||||||||| | ||| ||| ||||
gtaagttacactcacaacaaaattaagaacagttaggcacttgtcattgtggtttcaaattaccatat-tcttctttttcagCCCTTTCCTTGGTTTAGACTCTCGTATTTTGTGCTGTGGAGCTGTGGCTACATAATTTTCCAATGGGTCATCCACGCCTTTGGTTTTACATG

upper sequence: Vv07s0005g02170.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G40780.1 (Glycine max), 3'ss of exon 5
--gtaagtatagaatcatcaagaagttaataacctactgat----aaaaattaagcgactgtccatct-----------------tgttttc-----cagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTATGTTATTTTCCAATGGGTCATCCACGCTTGTGGGTTTTCATG
  | |   | ||  |  || | |  || || |  | ||| |    ||  |||| ||   | |||| ||                 ||  |||     |||||||| || |||||  |  | || || ||||| ||||||||||||  ||| || ||||| ||||||||||||||||| | ||| |||  |||
ctgcatccaaagttttttccaaagtttgattaagttctggtttaaaagcattaggcacttatccagctcacggttgtgatattggtgcattcattggcagCCATTTCCTTGGTTTAGAGTCTCCTATTTTGTTCTCTGGAGCTGTGGCTACGTCATTTTTCAATGGGTCATCCACGCCTTTGGTTTTAAATG
















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|110374265|gb|EC938934.1|EC938934
EST:     ATACTATGAATGCGTTCTTCCTCCTCCTTGACACCAGCCTCAATAGCCTT                         CCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
genomic: ATACTATGAATGCGTTCTTCCTCCTCCTTGATACCAGCCTCAATAGCCTTgtaagtatag ... tgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
EST: gi|110411341|gb|EC977050.1|EC977050
EST:     ATACTATGAATGCGTTCTTCCTCCTCCTTGATACCAGCCTCAATAGCCTT                         CCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
genomic: ATACTATGAATGCGTTCTTCCTCCTCCTTGATACCAGCCTCAATAGCCTTgtaagtatag ... tgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
EST: gi|30135410|gb|CB920748.1|CB920748
EST:     ATACTATGAATGCGTTCTTCCTCCTCCTTGATACCAGCCTCAATAGCCTT                         CCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
genomic: ATACTATGAATGCGTTCTTCCTCCTCCTTGATACCAGCCTCAATAGCCTTgtaagtatag ... tgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
EST: gi|110732125|gb|EE107140.1|EE107140
EST:     ATACTATGAATGCGTTCTTCCTCCTCCTTGACACCAGCCTCAATAGCCTT                         CCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT
genomic: ATACTATGAATGCGTTCTTCCTCCTCCTTGATACCAGCCTCAATAGCCTTgtaagtatag ... tgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaagttaataacctactgataaaaattaagcgactgtccatcttgttttccagCCATTCCCATGGTTCCGGTTGTCGTACTTTGTGCTCTGGAGCTGTATCTATGTTATTTTCCAATGGGTCATCCACGCTTGTGGGTTTTCATG
                                      tccatcttgttttcc  CT-rich tract
               tactgataaaaattaa  TA-rich tract