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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttatttcttgatgatttttcttttcttttttctttattctaaaagtttctaacaggatgtgtgtactatgtatgccaatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGATGCTGGGGTGTCTTCTATGCATAGTGGGATCTGTAGTGATTGTGCTCCAT

Basic information

species Vitis vinifera
transcript Vv07s0031g02960.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0031g02960.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G16670.1 (Glycine max), 3'ss of exon 3
gtaaatttatttcttgatgatttttcttttcttttttctttattctaaaagtttctaacaggatgtgtgtactatgtat--gccaatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGATGCTGGGGTGTCTTCTATGCATAGTGGGATCTGTAGTGATTGTGCTCCAT
          |  |||   |||||| | ||||||||| || ||  ||    ||||||  |   |   |||  | || ||  |  ||||| ||||||||| || ||||| ||  ||||||| ||||| || ||||||||||| ||||||||||||||||| ||||| ||||| ||    |||||||||||||||
---------gtaattgccaattttt-tattctttttttttaatattatt--tttctactaaattaactgttttgtgaatctggaaatggctagTGCTGTGTTGGCGCATTTCATGTTGAACGAGAAGCTGCAGAAAATGGGCATGCTGGGGTGTCTTCTGTGCATTGTGGGGTCCACTGTGATTGTGCTCCAT

upper sequence: Vv07s0031g02960.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G38380.1 (Glycine max), 3'ss of exon 3
-----gtaaatttatttcttgatgatttttcttttcttttttctttattctaaaagtttctaacaggatgtgtgtactatg--tatgccaatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGATGCTGGGGTGTCTTCTATGCATAGTGGGATCTGTAGTGATTGTGCTCCAT
     ||||| | |     | ||| ||||  | ||||||||| | || | |     ||||||  |   |   |||  | ||  | ||  ||||| ||||||||| || ||||| ||  ||||||| ||||| || ||||||||||| ||||||||||||||||| |||||                            
gttaggtaaaataaaacgcttatggttttattattcttttttttataatatt----tttctactaaattaactgttttgtgactctggaaatggttagTGCTGTGTTGGCGCATTTCATGTTGAACGAGAAGCTGCAGAAAATGGGCATGCTGGGGTGTCTTCTGTGCATT---------------------------

upper sequence: Vv07s0031g02960.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G33020.1 (Glycine max), 3'ss of exon 3
----------gtaaatttatttcttgatgatttttcttttcttttttctttattctaaaagtttctaacaggatgtgtgtactatgtatgccaatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGATGCTGGGGTGTCTTCTATGCATAGTGGGATCTGTAGTGATTGTGCTCCAT
            ||| |||    | |       |            |   || | |||   | |     ||||  || | | |   ||||   ||||  |||||||| || || || ||| | ||||| ||||| || ||||||||||| ||| ||||||||||||| ||||| ||||||||    || |||||| | |||
gtataaaaactaaaacttaaaaatggggacaactataggaaccacgtgaatagtttaaccttattattaaggagctgagaattgc-tatggatatgggcagTGCTGTCTTGGCACATTTTCTCTTGAAGGAGAAGCTGCAGAAAATGGGCATGTTGGGGTGTCTTCTGTGCATTGTGGGATCAACTGTTATTGTGTTGCAT

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|161718353|gb|FC065012.1|FC065012
EST:     GCCCCTGCTACGCTTGTAACGCCTCTTGGTGCATTGAGCATTATTGTTAG                         TGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGAT
genomic: GCCCCTGCTACGCTTGTAACGCCTCTTGGTGCATTGAGCATTATTGTTAGgtaaatttat ... caatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGAT
EST: gi|294965011|gb|GW838814.1|GW838814
EST:     CCCCTGCTACGCTTGTAACGCCTCTTGGATGCATTGAGCATTATTGTTAG                         TGCTGTTTTGGCGCACTATTTGTTGAATGAGAAACTACAGAAAATGGGGAT
genomic: CCCCTGCTACGCTTGTAACGCCTCTTGG-TGCATTGAGCATTATTGTTAGgtaaatttat ... caatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttattctaaaagtttctaacaggatgtgtgtactatgtatgccaatggatagTGCTGTTTTAGCGCACTTTTTGTTGAATGAGAAACTACAGAAAATGGGGATGCTGGGGTGTCTTCTATGCATAGTGGGATCTGTAGTGATTGTGCTCCAT
                ttctaac  putative branch site (score: 1)
     attctaaaa  TA-rich tract