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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgattgttttgttgtagttgttggtggcagtttactttttgttttgaaatgtgtattgattatgtgctggacttgcagGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAGATTCCTGATGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCAT

Basic information

species Vitis vinifera
transcript Vv17s0000g07470.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G10200.1 (Glycine max), 3'ss of exon 1
-----------------gtttgattgttttgttgtagttgttggtggca--gtttactttttgtt-ttgaaatgtgtattgattatgtgctggacttg---cagGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAGATTCCTGATGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCAT
                    |  ||||||| || || || || | ||    ||||| || | ||  || ||| ||| |||||   || |      ||     |||||||    ||  | ||   ||||||||||||||||| ||| |||||| ||||||||||||||||  |||| || |||||||| ||  |||| ||||| |
gtttgtgtaaattcttaagatatttgttttttt-taattttttgcggtgatgtttatttatggtaattcaaaagtgaattgagagtgcgtgatgttttgtttagGTGAAATTAGTTCGGGACGTTATGAATCAGATGTTGGAAGCGTGGAAGCAGATTCCTGATGTTTCGGATGAAGTTTCGCCACCTCCTAAATCGCAATCTT

upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G19940.1 (Glycine max), 3'ss of exon 1
------------gtt-tgattgttttgttgtagttgt----tggtggcagtttactttttgttttgaaatgtgtattgattatgtgctgg--acttgcagGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAGATTCCTGATGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCAT
            |||    ||||  || ||   | |     | |||     |      |||||| ||| ||  |   | || |||  ||   | ||| |||| |||   ||  | ||   ||||||| |||||||||  || |||||| ||||||||||||||||  ||||  |||| ||||| || ||||| || |  |
tgagcaaatgttgttgcagttgtggtgatgatatcgcaatattgtgaggcctggagcattgtttagaagtggattgagtttgtgtcttgtttatttgtagGTAAAGTTGGTTCGGGAGGTTATGAATGAGATGTTGGAGGCATGGAAGCAGATTCCTGATGTTTCGGATGAATTCTCTCCACCTCCTCAATCGCAGTTGT

upper sequence: Vv17s0000g07470.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G34790.2 (Glycine max), 3'ss of exon 1
-------gtttgattgtt-ttgttgtagttgttg-gtggcagtttactttttg------ttttgaaatgtgtattgattatgtgctggacttgc----agGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAGATTCCTGATGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCAT
        | || | |   |||| ||  |  ||  | |  | | |   || ||      | || | | ||| ||||| | ||||      |||     |||| |||   ||  | ||   |||||||||||||||||  || |||||| | ||||||||||||||  ||||  |||| ||||| || ||||  || |  |
tgagcaaatgtggtagcaattgtggtgatgatttcgcgatattgtgtgttctggaacattgtttagaagtgaattgagtttgtgtcttgtttgtgtatagGTAAAGTTGGTTCGGGAGGTTATGAATCAGATGTTGGAGGCATGGAAGCATATTCCTGATGTTTCAGATGAGTTCTCTCCACCTCCTCAATTGCAGTTGT

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|122691183|gb|EC963796.1|EC963796
EST:     AGTTCAAGTCTTCTTGTCTGAAGACATTTGAGGCTCGAAGATTCGACAAG                         GTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAG
genomic: AGTTCAAGTCTTCTTGTCTGAAGACATTTGAGGCTCGAAGATTCGACAAGgtttgattgt ... ggacttgcagGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAG
EST: gi|110423718|gb|EC990069.1|EC990069
EST:     AGTTCAAGTCTTCTTGTCTGAAGACATTTGAGGCTCGAAGATTCGACAAG                         GTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAG
genomic: AGTTCAAGTCTTCTTGTCTGAAGACATTTGAGGCTCGAAGATTCGACAAGgtttgattgt ... ggacttgcagGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggcagtttactttttgttttgaaatgtgtattgattatgtgctggacttgcagGTGAAGGCTGTGAGAGATACTATGAATCAGATGTTGGGAGCTTGGAAGGAGATTCCTGATGTTTCCAATGATGTCTCGCCACCGCCGCAATCACAATCAT
                              tattgat  putative branch site (score: 3)
       tttactttttgtttt  TA-rich tract