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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtgtaacctaacgctaaccctaaatcccctgtttggcttccgaaaaagtggattataattagagggagatttaatttttcagctctcttagtcgaatgcaaaattgaattaagctaattaagtgggtgatttttcgcagGATGTATTGAAGAAAGGCAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTTGGAAATGAAATTTTGCTTGATAATGGTGAAGTTGACCGGGCAAAATTGG

Basic information

species Vitis vinifera
transcript Vv07s0005g00040.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g25880.1 (Oryza sativa), 3'ss of exon 2
gtgagtgtaacctaacgctaaccctaaatcccctgtttggcttccgaaaaagtggattataattagagggagatttaatttttcagctctcttagtcgaatgcaaaattgaattaagctaattaagtgggtgatttttcgcagGATGTATTGAAGAAAGGCAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTTGGAAATGAAATTTTGCTTGATAATGGTGAAGTTGACCGGGCAAAATTGG
                                    || | |  |  || | |  |   | || |    |     ||   | |  | || |   ||  | ||||| |||   ||   || |||  |  | |     || |||| ||||  |  ||||||||| ||||||||||| |||| |||| | ||| |||||||||||  || || | || ||||| ||| ||||||| ||    || |
-----------------------------------attagttctc--aatactaaaccctgatcaagttgcatactagcatat--ggtcgcaatgttcattgcaagatt---ttgtactgattggg-agttatacatttgcagAATGTGGTACAGAAAGGCACTGGAGGTTGGAAGAAGATTGTAGAAGCTTTTGGAAATGATGTTCTGTTAGAAAATGGAGAAATTGACCGAGCTCGCTTAG
















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|110423978|gb|EC990331.1|EC990331
EST:     TCTTCAAGGTCCATGGCATCCCCGTCGTCGACGCGGATCTCGTTGCTCGC                         GATGTATTGAAGAAAGGTAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTT
genomic: TCTTCAAGGTCCATGGCATCCCCGTCGTTGACGCGGATCTCGTTGCTCGCgtgagtgtaa ... tttttcgcagGATGTATTGAAGAAAGGCAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTT
EST: gi|110425944|gb|EC992340.1|EC992340
EST:     TCTTCAAGGTCCATGGCATCCCCGTCGTTGACGCGGATCTCGTTGCTCGC                         GATGTATTGAAGAAAGGCAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTT
genomic: TCTTCAAGGTCCATGGCATCCCCGTCGTTGACGCGGATCTCGTTGCTCGCgtgagtgtaa ... tttttcgcagGATGTATTGAAGAAAGGCAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttagtcgaatgcaaaattgaattaagctaattaagtgggtgatttttcgcagGATGTATTGAAGAAAGGCAGTGGAGGTTGGAGGAAGGTTGTTGCAGCATTTGGAAATGAAATTTTGCTTGATAATGGTGAAGTTGACCGGGCAAAATTGG
                           agctaat  putative branch site (score: 3)
                                             tttttcgc  putative PPT
               aaaattgaattaagct  TA-rich tract