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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttaattctaaatttgagcacttcatttctctacaatttgtgaccatttgtttttggatcttgtgtttattcttactgttatttatctactttgatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCTGTACGGGTGGGTCAGGCTGTGGATGTTGTTGGACAGGCTGGTCGGCCAA

Basic information

species Vitis vinifera
transcript Vv12s0028g03130.t01
intron # 23
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: LOC_Os02g05340.1 (Oryza sativa), 3'ss of exon 23
gttaattctaaatttgagcacttcatttctctacaatttgtgaccatttgtttttggatcttgtgtttattcttactgtt-atttatctactttgatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCTGTACGGGTGGGTCAGGCTGTGGATGTTGTTGGACAGGCTGGTCGGCCAA
             | |  || ||  ||  |  ||| |||       ||  |  |   | ||  | |||  |  ||   || | || ||| |||  ||| ||||||| |||||| |  | || ||||||||||||||||| || || ||||| || |||||||| || || ||||| ||||| ||||| ||||||||  |||| |
----------gtatggtccatttagttaattgacagttt-----tgttgctagtgcaaactactatttggtactaaaattgagttctcttcttgtatg-tacagCCTAGAATGCTTTTAACGGTGGATGAGGATCTAAAGCCCCTATCTGTTCCAGTACGGGTTGGGCAAGCTGTTGATGTGGTTGGTCAGGCTGGAAGGCCCA

upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA12G13410.1 (Glycine max), 3'ss of exon 23
gttaattctaaatttgagcacttcatttct-ctacaatttgtgaccatttgtttttggatcttgtgtttattcttactgttatttatctactttgatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCTGTACGGGTGGGTCAGGCTGTGGATGTTGTTGGACAGGCTGGTCGGCCAA
|||   ||  | ||| |   | || || ||   | |   | |  || ||         || ||      ||||| | |  ||||| | || |||| ||||||||||||| |||||| |||||||||||||| |  | || ||||| || || ||||| || || || || || || |||||||||||||| || ||||| || |
gtttgatc-gagtttcatttcctctttcctgtcatagactcttccccttccccc----attttaaacc-attctcagttatattt-tgtaatttgttgctacagCCAAGGATGTTGTTGACTGTGGATGAGAACTTGAAGCCTCTATCAGTGCCTGTTCGTGTTGGACAAGCCGTAGATGTTGTTGGACAAGCAGGTCGTCCGA

upper sequence: Vv12s0028g03130.t01 (Vitis vinifera), 3'ss of exon 23
lower sequence: GLYMA06G44340.1 (Glycine max), 3'ss of exon 23
gttaattctaaatttgagcacttcatttctctacaatttgtgaccatttgtttttggatcttgtgtttattcttactgttatttatctactttgatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCTGTACGGGTGGGTCAGGCTGTGGATGTTGTTGGACAGGCTGGTCGGCCAA
|||   |   | |||   || ||| | | || |    | |   |      ||     || ||      ||||| | |  ||||| | || |||| |||  |||||||| |||||| |||||||||||||| |  | || |||||||| || ||||| || || || || || || |||||||||||||| || ||||| || |
gtttgattggagttt---catttcctctttccagtcatagactcttccccttcccccattttaaacc-attctcagttatattt-tgtaatttgttgcatcagCCAAGGATGTTGTTGACTGTGGATGAGAACTTGAAGCCTCTGTCAGTGCCTGTTCGTGTTGGACAAGCCGTAGATGTTGTTGGACAAGCAGGTCGTCCGA

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|110370776|gb|EC932910.1|EC932910
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|22010967|gb|BQ796001.1|BQ796001
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|110416060|gb|EC982014.1|EC982014
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCCGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|27584813|gb|CB007508.1|CB007508
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|110365725|gb|EC929133.1|EC929133
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|27582517|gb|CB005212.1|CB005212
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|110708175|gb|EE085416.1|EE085416
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAAGATCTAAAACCTCTGTCCGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
EST: gi|161713613|gb|FC062533.1|FC062533
EST:     TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAG                         CCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT
genomic: TCTTGGGGAAATACCATTATGTTCTTTATGTCCTTGTTTTGGCCATGCAGgttaattcta ... gatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtttttggatcttgtgtttattcttactgttatttatctactttgatgctacagCCAAGAATGTTGATGACTGTGGATGAGGATCTAAAACCTCTGTCTGTACCTGTACGGGTGGGTCAGGCTGTGGATGTTGTTGGACAGGCTGGTCGGCCAA
                 tttattcttactgtta  TA-rich tract