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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgcttagaagaatgcaaatggttggttttttttgcttatgttaattctgctgattgacctacattcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG

Basic information

species Vitis vinifera
transcript Vv09s0018g01840.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G143356_T02 (Zea mays), 3'ss of exon 9
gtgagtgcttagaagaatgcaaatggttggttttttttgcttatg-ttaattctgctg-attgacctacat-------tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG
|| |||| | | | ||     |     |  ||  |  | ||  |  ||| || | | | ||| |   || |           ||  ||||||| ||| | || ||||||||||||||||| ||||| ||| |||||||||||
gtaagtgttcaaatgagcttgagcttctctttcatggttctgttacttagttgttcagtattcatgcacgtgattatcctccctgcagGACATAACACTTGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G040017_T02 (Zea mays), 3'ss of exon 8
gtgagtgcttagaagaatgcaaat---ggttggttttttttgct-tatgttaattctgctg-attgacctacat-------tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG
|| |||| | | | ||     |      |||   |  || || |   | ||| || | | | ||| |   |  |       ||| ||  ||||||| ||| | || ||||||||||||||||| ||||| ||| |||||||||||
gtaagtgttcacatgagcttgagcttcagtttcatggttctgttacttcttagttgttcagtattcatgcatgtgattgtctctcctgcagGACATAACACTGGGTGTTGCAATTGGTTCATCAACACAGATATCAATGTTTGTG

upper sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G00380.2 (Glycine max), 3'ss of exon 7
gtgagtgcttagaagaatgcaaatggttggttttttttgcttatgttaattctgctgattgacctacattcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG
|| |||| ||   | |    |     |   | || |  |  |||  | | |||||| ||  |   |   ||| || ||||| ||||| || |||||||| ||||| ||||||||||| ||| | |||||||||
gtaagtggttttcaaagcctac----tctttattctacgaatattgttaatctgctaatgaattcaatctctcct-tagGATATCACTATTGGAGTTGCTATTGGATCATCTACACAGATATCTATGTTTGTG

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|351057010|gb|FQ448527.1|FQ448527
EST:     ATGCCGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTT                         GACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
genomic: ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTTgtgagtgctt ... tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
EST: gi|349830905|gb|FQ418189.1|FQ418189
EST:     ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTT                         GACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
genomic: ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTTgtgagtgctt ... tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
EST: gi|351033483|gb|FQ462134.1|FQ462134
EST:     ATGCCGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTT                         GACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
genomic: ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTTgtgagtgctt ... tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
EST: gi|349830995|gb|FQ418279.1|FQ418279
EST:     ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTT                         GACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
genomic: ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTTgtgagtgctt ... tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
EST: gi|161721025|gb|FC069979.1|FC069979
EST:     ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTT                         GACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
genomic: ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTTgtgagtgctt ... tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
EST: gi|77581344|gb|DV219604.1|DV219604
EST:     ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTT                         GACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT
genomic: ATGCTGCTGAGCATGCCAGTGCAATTATGTTTGCCATAAAGAACAAGCTTgtgagtgctt ... tcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggttggttttttttgcttatgttaattctgctgattgacctacattcttctatagGACATCACAATCGGAGTTGCAATTGGTTCATCTACACAAATAGCAATGTTTGTG
                                gattgac  putative branch site (score: 3)
                                          cattcttct  putative PPT
      ttttttttgcttatgt  TA-rich tract