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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgatggtctatttgtgtacgaaaaatttctggttgccttctttgtaatttcgatttacagctttgtctaagtcatttactgcttgcagCTACCAGCTCCACAGCTTGAAAGTGCTCTGAACAAACATGCTAACCTCAGAGGTCCTCTTTCTGCTTATGCTAGCCAACCAAGTATAAAATCATCATTGC

Basic information

species Vitis vinifera
transcript Vv18s0001g08140.t01
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g08140.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA04G09480.1 (Glycine max), 3'ss of exon 24
-------gtaattgatggtctatt--tgtgtacgaaaaatttctggttgccttctttgtaatttcgatttacagctttg-tctaagtcatttactgcttgcagCTACCAGCTCCACAGCTTGAAAGTGCTCTGAACAAACATGCTAACCTCAGAGGTCCTCTTTCTGCTTATGCTAGCCAACCAAGTATAAAATCATCATTGC
        |||   ||  | ||||    || | | | ||| ||        ||||    || |    ||| || |  |   ||   |  | | || ||  ||| | ||| ||| |||||| |||||||| || ||||  |||||||| ||||||||||| ||| || ||||||| |||||||||| | ||||||||||| |  
tgtgcctataaactata-tttattacaatgaatgcagaatatcaatactgattctcgacaaat--agtttccaacaataaccttttttgtgttctcctcacagTTGCCACCTCAACAGCTGGAAAGTGCACTCAACAGGCATGCTAATCTCAGAGGTCCCCTTGCTTCTTATGCCAGCCAACCAACTGTAAAATCATCACTTA

upper sequence: Vv18s0001g08140.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA06G09580.1 (Glycine max), 3'ss of exon 23
---------gtaattg-atggt-ctatttgtgtacgaaaaattt--ctggttgccttctttgtaatttcgatttacagctttgtctaagtcatttactgcttgcagCTACCAGCTCCACAGCTTGAAAGTGCTCTGAACAAACATGCTAACCTCAGAGGTCCTCTTTCTGCTTATGCTAGCCAACCAAGTATAAAATCATCATTGC
         ||||||  |||   |||||  |     | | ||||  || | |||| | ||  || |||| |   | | | || | |  ||      || ||  ||| | ||| ||| ||| || |||||||| || ||||  |||||||| ||||||||||| ||| || ||||||| |||||||||| |                
ctaattactgtaattacatgaaactattgttagcttatacatttatctagatgccat-ttaatagtttccaacaataaccttttttgtgtt-----ctcctcacagTTGCCACCTCAACAACTGGAAAGTGCACTCAACAGGCATGCTAATCTCAGAGGTCCCCTTGCTTCTTATGCCAGCCAACCAACT----------------
















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|110374102|gb|EC938641.1|EC938641
EST:     TGAAATGTGTGTCTCAGACACAGCCACATTCTTTCCGTGTACTGTTACAG                         CTACCAGCTCCACAGCTTGAAAGTGCTCTGAACAAACATGCTAACCTCAGA
genomic: TGAAATGTGTGTCTCAGACACAGCCACATTCTTTCCGTGTACTGTTACAGgtaattgatg ... ctgcttgcagCTACCAGCTCCACAGCTTGAAAGTGCTCTGAACAAACATGCTAACCTCAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgccttctttgtaatttcgatttacagctttgtctaagtcatttactgcttgcagCTACCAGCTCCACAGCTTGAAAGTGCTCTGAACAAACATGCTAACCTCAGAGGTCCTCTTTCTGCTTATGCTAGCCAACCAAGTATAAAATCATCATTGC
       tttgtaattt  TA-rich tract