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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagttgaaagagctttttctcccttgctataactctcttagtcctcagattattgttctctttactcaatttatgcaggtttagctgttcaagaatatttatatttgccaccttatcatattggtttctcaacagTTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATATTACCCAGACGGGGCCTTTGAACCAGTTCTGCCTCCACAACAG

Basic information

species Vitis vinifera
transcript Vv02s0488g00020.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0488g00020.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G41570.1 (Glycine max), 3'ss of exon 10
gtgagttgaaagagctttttctcccttgctataactctcttagtcctcagattattgttctctttactcaatttatgcaggtttagctgttcaagaatatttata--tttgccaccttatcatattggtttctcaacagTTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATATTACCCAGACGGGGCCTTTGAACCAGTTCTGCCTCCACAACAG
                               ||| ||   ||    |    || |  |  | |  |   ||| | |||   || |  |  | | |||   |||||  ||||  | |||||  |||   ||    ||||||||||||| ||||||||||| ||||| || ||||| ||||||||||||||||||||||| ||   |||  | |||||| | || ||||||   
------------------------------gtaagtcctctaaatgtatttttgtgatattatgaatagaatat-tgctaattgatttcatgaggaaagcttatatatttgtaatcttattttatacatt----aacagTTTGAGCACGACACTGTTTTAATACCAAAGGAAACTTCCTGGTTTGGATATTACCCAGATGGCTACTTCAAGCCAGTTTTACCACCACAATCA
















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|110377324|gb|EC942388.1|EC942388
EST:     CAACTTACAAGGAACGTTTCAGTAGCTTAGAGAATTTGGTTCTTATCATG                         TTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATAT
genomic: CAACTTACAAGGAACGTTTCAGTAGCTTAGAGAATTTGGTTCTTATCATGgtgagttgaa ... ttctcaacagTTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATAT
EST: gi|33401770|gb|CF207397.1|CF207397
EST:     CAACTTACAAGGAACGTTTCAGTAGCTTAGAGAATTTGGTTCTTATCATG                         TTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATAT
genomic: CAACTTACAAGGAACGTTTCAGTAGCTTAGAGAATTTGGTTCTTATCATGgtgagttgaa ... ttctcaacagTTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATAT
EST: gi|110387835|gb|EC952533.1|EC952533
EST:     CAACTTACAAGGAACGTTTCAGTAGCTTAGAGAATTTGGTTCTTATCATG                         TTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATAT
genomic: CAACTTACAAGGAACGTTTCAGTAGCTTAGAGAATTTGGTTCTTATCATGgtgagttgaa ... ttctcaacagTTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagctgttcaagaatatttatatttgccaccttatcatattggtttctcaacagTTTGAGCAGGACACTGTTTTGATACCTAAAGAAACCTCCTGGTTTGGATATTACCCAGACGGGGCCTTTGAACCAGTTCTGCCTCCACAACAG
                                            tttctc  CT-rich tract
     tgttcaagaatattta  TA-rich tract