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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattcttctctagctagtgatttagttcaatcttaataatcatttcaggatgattggtataggccatttaatccagcagtacttttttattcagcttacatgaggacctttctcattttagGTTGGGGACAAAGTACAGAAAGGAAAAGTCTTGTGCATCATTGAGGCCATGAAATTGATGAATGAGATAGAA

Basic information

species Vitis vinifera
transcript Vv04s0023g00760.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g00760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G38440.1 (Glycine max), 3'ss of exon 4
gtgattcttctctagctagtgatttagttcaatcttaataatcatttcaggatgattggtataggccatttaatccagcagtacttttttattcagcttacatgaggacctttctcattttagGTTGGGGACAAAGTACAGAAAGGAAAAGTCTTGTGCATCATTGAGGCCATGAAATTGATGAATGAGATAGAA
                                           |  ||      |||| ||||     | || |   |    |    ||| |  | | |  ||| | |   ||||   |||||||||| ||||||||| |||| ||  ||||  | |||||||||||||| ||||||||||||||||| ||||||
-----------------------------------------gtagatcttatctattg-tataattt-tatatttttgtgtcatgaatttttgaaacct-tatgtgaagtattcttcctttagGTTGGAGACAAAGTAAAGAAGGGGCAAGTTGTATGCATCATTGAGGCAATGAAATTGATGAATGAAATAGAA

upper sequence: Vv04s0023g00760.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G47880.1 (Glycine max), 3'ss of exon 4
gtgattcttctctagctagtgatttagttcaatcttaataatcatttcaggatgattggtata-ggccatttaatccagcagtacttttttattcagcttacatgaggacctttctcattttagGTTGGGGACAAAGTACAGAAAGGAAAAGTCTTGTGCATCATTGAGGCCATGAAATTGATGAATGAGATAGAA
                                             | ||   |   |  ||||  |   |  | |   |    |   |||| |  | | || ||| | |   ||||   |||||||||| ||||||||| |||| ||  ||||  | |||||||||||||| ||||||||||||||||| || |||
--------------------------------------------gtacattttatctattatatagttttacatttttgtgtcatgcttttttgaaaccta-atgcgaagtattcttcctttagGTTGGAGACAAAGTAAAGAAGGGGCAAGTTGTATGCATCATTGAGGCAATGAAATTGATGAATGAAATTGAA
















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|110386077|gb|EC950650.1|EC950650
EST:     CAGGCACATTCTACCGAAGCCCAGGACCCAATGAACCGCCATTTGTGAAG                         GTTGGGGACAAAGTACAGAAAGGAAAAGTCTTGTGCATCATTGAGGCCATG
genomic: CAGGCACATTCTACCGAAGCCCAGGACCCAATGAACCGCCATTTGTGAAGgtgattcttc ... ctcattttagGTTGGGGACAAAGTACAGAAAGGAAAAGTCTTGTGCATCATTGAGGCCATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttaatccagcagtacttttttattcagcttacatgaggacctttctcattttagGTTGGGGACAAAGTACAGAAAGGAAAAGTCTTGTGCATCATTGAGGCCATGAAATTGATGAATGAGATAGAA
                          agcttac  putative branch site (score: 3)
                                        cctttctcatttt  putative PPT
           agtacttttttatt  TA-rich tract