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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAATCAAGTATCTCTGTTGGTGCTTCTGGTGCACTCTTTGGTTTACTTGGAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAGgtacttaataactgctctcaatgacttgaggttccttttgaaaatttcatttctttggagttagctacttatgggggcctatatctcacagtttcagttatttttttaatgctcag

Basic information

species Vitis vinifera
transcript Vv06s0004g04890.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g04890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: LOC_Os01g05430.1 (Oryza sativa), 5'ss of exon 1
CCAATCAAGTATCTCTGTTGGTGCTTCTGGTGCACTCTTTGGTTTACTTGGAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAGgtacttaataactgctctcaatgacttgaggttccttttgaaaatttcatttctttggagttagctacttatgggggcctatatctcacagtttcagttatttttttaatgctcag
    |||| ||||||||||||||| || |||||||| ||||| || || ||    ||||| ||||| || || |||||||||||||||||||  ||||||||  || ||  | | |||  |||  || |      ||    ||||   | | | ||     | | | || || |    || | | | | | |  |||                   
GGTGTCAAATATCTCTGTTGGTGCCTCAGGTGCACTGTTTGGATTGCTGGGGTCCATGCTGTCAGAGCTGATAACAAATTGGACAATATATGAGAATAAGgt--ttgatctcagatct--atgcattta----ttttacacaaatcctactgcattt---cttgttgctaattgcattct-tgtttaataatc-cag-------------------

upper sequence: Vv06s0004g04890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA13G41170.1 (Glycine max), 5'ss of exon 3
CCAATCAAGTATCTCTGTTGGTGCTTCTGGTGCACTCTTTGGTTTACTTGGAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAGgtac-----ttaataactgctctcaatg-acttgaggttccttttgaaaatttcatttctttggagttagctacttatgggggcctatatctcacagtttcagttatttttttaatgctcag
 |||  | | ||||| || ||||||||||||||| | ||||| ||||| ||||| ||||| || || ||| | | |||||||||||||||||| |||||||||      | || || |    || ||| | | | |  | |||   || |  | ||    |  |  || |      |  |     ||| | |      |||  |  || | ||  |   |||
ACAAGAAGGAATCTCCGTGGGTGCTTCTGGTGCATTATTTGGCTTACTAGGAGGCATGCTATCGGAGCTCTTGATAAATTGGACAATATATGCCAATAAGgtaagtgaatcaacaaatctgttccatgcaatggtgcctgcttcctaataaatgatccgctctgcctttgtg--caacagacatttattttttttccattctatgtttgtattgttttgcag

upper sequence: Vv06s0004g04890.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA15G04230.1 (Glycine max), 5'ss of exon 3
CCAATCAAGTATCTCTGTTGGTGCTTCTGGTGCACTCTTTGGTTTACTTGGAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAGgtac-----ttaataactgctctcaatg-acttgaggttccttttgaaaatttcatttctttggagttagctacttatgggggcctatatctcacagtttcagttatttttttaatgctcag
 |||    | ||||| |||||||||||||||||| | ||||| ||||| ||||| ||| | || || ||| | | |||||||||||||||||| ||||||||       | || || ||   |||||  | | | | || |||   || |  | ||    |  |  || |      |  |     ||| |||      ||   |  || | ||  |   |||
ACAAGAGGGAATCTCGGTTGGTGCTTCTGGTGCATTATTTGGCTTACTGGGAGGCATGTTATCGGAGCTCTTGATAAATTGGACAATATATGCCAATAAGgtgaatggatcaaaaaatgtgttcaattcaatagtgcttgcttcgtaataaatgatccgctctgcctttgtg--caacagacatttatttcttttccattttatgtttgtattgttttgcag

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|110364763|gb|EC928246.1|EC928246
EST:     ATCACAAAATTTGGACAATATATGCAAAATAAG                         TTTGCAGCATTATTGACTCTCATTCTCATCATCATAGTCAATCTAGCAGT
genomic: ATCAC-AAA-TTGGACAATATATGC-AAATAAGgtacttaata ... taatgctcagTTTGCAGCATTATTGACTCTCATTCTCATCATCATAGTCAATCTAGCAGT
EST: gi|110702261|gb|EE080769.1|EE080769
EST:     GAGGGATGCTTTCGGAACTCATCACAAATTGGACAATATATGCAAATAAG                         TTTGCAGCATTATTGACTCTCATTCTCATCATCATAGTCAATCTAGCAGTG
genomic: GAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAGgtacttaata ... taatgctcagTTTGCAGCATTATTGACTCTCATTCTCATCATCATAGTCAATCTAGCAGTG
EST: gi|110382751|gb|EC947072.1|EC947072
EST:     GAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAG                         TTTGCAGCATTATTGACTCTCATTCTCATCATCATAAGTCA-TCTAACAGT
genomic: GAGGGATGCTTTCAGAACTCATCACAAATTGGACAATATATGCAAATAAGgtacttaata ... taatgctcagTTTGCAGCATTATTGACTCTCATTCTCATCATCATA-GTCAATCTAGCAGT