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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgttattcaagcattcaaagaatgttttatgctgtttagatttgtttcatgctctgaagtctgtgaatgatggtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAAGGTGAAGGTCTTCATGTTTCTCCTGGTAGACAAAGGGAACTGGGTTTTA

Basic information

species Vitis vinifera
transcript Vv11s0016g03070.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0016g03070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G432801_T01 (Zea mays), 3'ss of exon 2
gtgagt----gttattcaagcattcaaagaatgttttatgctgtttagatttgtttcatgctctgaagtctgtgaatgatggtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAAGGTGAAGGTCTTCATGTTTCTCCTGGTAGACAAAGGGAACTGGGTTTTA
||||||    | | ||| |   ||       ||  || ||   ||| ||     ||  |  | || | ||| ||||| ||  ||||  ||||   ||||||||| ||||||||| ||| | ||||||||||||| |||||||||||||| | | ||  |  |    ||||| || || ||||| ||||| |
gtgagtactcgctgttctatttttagtttcttgaattttgtgttttcgacactgtttgtcttatgta-tct-tgaatcat--tgata-cagGAACTATTTGATTTCATTGCTGCTGCATTGGCTAAATTTGTTGATACTGAAGGTGAAGATTTCCACCTCCCAGAGGGTAGGCAGAGAGAACTTGGTTTCA

upper sequence: Vv11s0016g03070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G058745_T02 (Zea mays), 3'ss of exon 2
----gtgagtgttattcaagcattcaaagaatgtt-ttatgctgtttagatttgtttcatgctctgaagtctgtgaatgatggtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAAGGTGAAGGTCTTCATGTTTCTCCTGGTAGACAAAGGGAACTGGGTTTTA
    ||   || | ||| |   ||       ||   || |||  |||  |     ||  |  | || | ||| ||||| ||  ||||  ||||   ||||||||| ||||||||| ||| | ||||||||||| | |||||||||||||| | | ||  |  |    ||||| || || ||||| ||||| |
gtgagtacttgctgttctaattttagtttcttgaagttgtgcgttttcaacactgtttgtcttatgta-tct-tgaattat--tgata-cagGAACTATTTGATTTCATTGCTGCTGCATTGGCTAAATTTGTCGGTACTGAAGGTGAAGATTTCCAACTCCCAGAGGGTAGGCAGAGAGAACTTGGTTTCA
















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|110720179|gb|EE095876.1|EE095876
EST:     AATTTGAGGAAGTTTCTATTCCTCCACATTTGATGGTTGGGAGTTCAGAT                         GCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
genomic: AATTTGAGGAAGTTTCTATTCCTCCACATTTGATGGTTGGGAGTTCAGATgtgagtgtta ... gtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
EST: gi|161712030|gb|FC060046.1|FC060046
EST:     CTCCACATTTGATGGTTGGGAGTTCAGAT                         GCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
genomic: CTCCACATTTGATGGTTGGGAGTTCAGATgtgagtgtta ... gtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
EST: gi|294965564|gb|GW837163.1|GW837163
EST:     AATTTGAGGAAGTTTCTATTCCTCCACATTTGATGGTTGGGAGTTCAGAT                         GCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
genomic: AATTTGAGGAAGTTTCTATTCCTCCACATTTGATGGTTGGGAGTTCAGATgtgagtgtta ... gtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
EST: gi|110377656|gb|EC942735.1|EC942735
EST:     AATTTGAGGAAGTTTCTATTCCTCCACATTTGATGGTTGGGAGTTCAGAT                         GCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA
genomic: AATTTGAGGAAGTTTCTATTCCTCCACATTTGATGGTTGGGAGTTCAGATgtgagtgtta ... gtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgctgtttagatttgtttcatgctctgaagtctgtgaatgatggtgatttcagGCTTTATTTGATTACATTGCTGCAGCACTTGCTAAATTTGTTGCTACTGAAGGTGAAGGTCTTCATGTTTCTCCTGGTAGACAAAGGGAACTGGGTTTTA
       tttagattt  TA-rich tract