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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctgttattatgcagtgtaattattacatttctgtctttagatatatctctagatcccaatgattgtttgatttaccatcagGAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTAATGTGTGCTTTTGGGAAGTACCAG

Basic information

species Vitis vinifera
transcript Vv03s0038g02830.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os04g59494.2 (Oryza sativa), 3'ss of exon 15
gtttctgttattatgcagtgtaattattacatttctgtctttagatatatctctagatcccaatgattgtttgatttaccatcagGAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTAATGTGTGCTTTTGGGAAGTACCAG
      |||||  | |    |  ||    ||||||||| |     | | | | ||  |   |   ||| | |  | |    |||||||||||| ||| |||||| ||||||||||| ||||||| | || ||||| |||||||| | ||| || ||||||
------gttatc-tacttgatctttgaaccatttctgtttgagattttctgtataattattatatattttct--tctgttttcagGAGGCTGCTGAAGAGTTAGTACCACACTTGGGAATTATTTTGCAGCACCTTATGTGTGCCTATGGAAAATACCAG

upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 15
------------gtttctgttattatgc----agtgtaattattacatttctgtctttag---atatatctctagatcccaa---tgattgtttgatttaccat--cagGAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTAATGTGTGCTTTTGGGAAGTACCAG
             ||| ||||  | | |    | || | | |||  ||| ||   ||||    | || | | || |||  ||   || ||   | |  |   ||   |||||||||| ||| |||| ||||||| |||||||||||| ||| | |||||||||  ||| |||||||| || |||
gttctgactacaatttttgttcatttacccttaatgaattgattcaattacttgatttattttaaatttatataaatctgaaatttggtttactaaacttttatgatagGAGGCTGCTGAAGAGTTGGCACCACGCTTGGAAATTATACTAAAGCACCTAATGACTGCATTTGGGAAATATCAG
















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|34550426|gb|CF518644.1|CF518644
EST:     GTTCAGCTTTTGCC-GACTCGAAGAG                         GAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTA
genomic: GTTCAGCTTTTGCCACACTCGAAGAGgtttctgtta ... ttaccatcagGAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctgtctttagatatatctctagatcccaatgattgtttgatttaccatcagGAGGCTGCAGAAAAGTTAGCACCACACTTGGAAATTATTCTACAACACCTAATGTGTGCTTTTGGGAAGTACCAG
                                      gtttgat  putative branch site (score: 5)
         tttagatatat  TA-rich tract