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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgctaaatagttttgtattcaattacctacaatacaagtgtaaaacatttatcagaagtcacgaaagtcatgaagaactgactgtttataattttttttttatgcagGTTTTTAGAGCCCTTGTCGAAACCACTAGAGGAATTGAAGGTGCAAAAGTTGAGAACCATAAGTTTTGCGCCTCTGTACATTACCGTAATGTAGATGAGA

Basic information

species Vitis vinifera
transcript Vv02s0154g00110.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0154g00110.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G14780.1 (Glycine max), 3'ss of exon 5
gtgctaaatagttttgtattcaattacctacaatacaagtgtaaaacatttatcagaagtcacgaaagtcatgaagaactgactgtttataattttttttttatgcagGTTTTTAGAGCCCTTGTCGAAACCACTAGAGGAATTGAAGGTGCAAAAGTTGAGAACCATAAGTTTTGCGCCTCTGTACATTACCGTAATGTAGATGAGA
|||| || |   | | |||     |  ||   ||  ||| |  ||||||| | |     || | | | | |  |||||   | || |   |       ||| |||||| ||||||||  ||| || || |  |||| ||  ||  |||| ||||||||||| || || |||||||| |  ||||| ||||||||||||||||| ||||
gtgcaaattctctctctatct--ctgtctcatat-taagcgagaaacattcacctttt-tctctataattaaaaagaaactaatgatggga----cgatttcatgcagATTTTTAGAATCCTCGTAGAGATTACTAAAGATATACAAGGAGCAAAAGTTGAAAATCACAAGTTTTGTGTTTCTGTGCATTACCGTAATGTAGAAGAGA
















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|351033137|gb|FQ446490.1|FQ446490
EST:     CCAGCCTGCCAGTGAATTTTTACCTATGATAGACGAG                         GTTTTTAGAGCCCTTGTTGAAACCACTAGAGGAATTGAAGGCGCAAAAGTT
genomic: CCAGCCTGCCAGTGAATTTTTACCTATGATAGACGAGgtgctaaata ... ttttatgcagGTTTTTAGAGCCCTTGTCGAAACCACTAGAGGAATTGAAGGTGCAAAAGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaagtcacgaaagtcatgaagaactgactgtttataattttttttttatgcagGTTTTTAGAGCCCTTGTCGAAACCACTAGAGGAATTGAAGGTGCAAAAGTTGAGAACCATAAGTTTTGCGCCTCTGTACATTACCGTAATGTAGATGAGA
                       aactgac  putative branch site (score: 2)
                                       ttttttttttatgc  putative PPT
                       aactgactgtttataa  TA-rich tract