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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggttaatatttctataattttctagttcttgttcttattttagtgcttgtgtccttcaaccaacatgcttaaccattgtgaacatttctagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACTGATTCAACAGCCTCTTTCGTGATTTATGCTCCTGTCGATGTTGTTGCCA

Basic information

species Vitis vinifera
transcript Vv12s0059g02310.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA06G46000.1 (Glycine max), 3'ss of exon 10
------------------gtaggttaatatttctataattttctagttc---ttgttcttatt---ttagtgcttgtgtccttca----accaacatgcttaaccattgtgaacatttctagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACTGATTCAACAGCCTCTTTCGTGATTTATGCTCCTGTCGATGTTGTTGCCA
                   ||  ||  |||||  |  ||||   | ||       |||  |||   |||    | |||   |       || ||       |  |||  | |||   | |||||||||||||||||||||||||||||||||||||| ||||| || || || |||||||||| |||||| || ||||||||||| || ||  ||||||| |
gtatgtttcaatttttttttaaatt--tattttcactatttgtcaatttgaaacattcccattaaattaaatttagtgagatgtgcatgactaatcaagcaagtcataattaac-catgtagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTACAAGAGAGTTGCACCGATTCAACAGGCTCTTTTGTAATTTATGCTCCAGTGGACATTGTTGCGA

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G10710.1 (Glycine max), 3'ss of exon 11
-------------------gtaggttaatatttctataattttctagttcttgttcttattttagtgcttgtgtccttcaaccaaca-tgcttaaccattgtgaacatttctagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACTGATTCAACAGCCTCTTTCGTGATTTATGCTCCTGTCGATGTTGTTGCCA
                    ||  |   ||| |  || ||||   | ||       ||          |    |   | ||     | |  ||||| ||     |   || |||||||||||||| ||||||||||||||||||||||| ||||| || || ||  ||||||||| |||||| || ||||||||||| || ||  ||||||| |
gtatgttatatattatatcttatatatgtatattcattatttgtcaatttgaaacattcccagtaaattaaactgagtgaagtgtgactaattaactatgtcataaccttgtagAGTGCAAATTCGAGCCAGAGCAACATGTTGATATTACAAGAGAGTTGCACCAATTCAACAGGCTCTTTTGTCATTTATGCTCCGGTGGACATTGTTGCAA

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G38430.1 (Glycine max), 3'ss of exon 11
---------------------gtaggttaatatttctataatttt-ctagttcttgttcttattttagtgcttgtgtccttcaaccaa-----catgcttaacca-------ttgtgaacatttc---tagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACTGATTCAACAGCCTCTTTCGTGATTTATGCTCCTGTCGATGTTGTTGCCA
                       |  || |   |||   |||||  | |  ||||  | ||   ||| |   |       | ||| ||      | | || || |       ||  |||   | |   |||||||| ||||||||||| ||||||||||||||||| ||||| || ||  | || |||||||  ||||| ||||| ||||||||||| ||| |||| || |
gtaagttgaccaaccatataaccacatttactattcatcaatttcaccaaatctttctttttcattaatttctagtcaaattaacaaagtgaataagtttgactaacccaagtttcgaatggtgcatgtagAGTGCGAATTCAAGCCAAAGCAACATGTTGATATTACAAGAGAGTTGCGCGGACTCAACAGGATCTTTTGTGATATATGCTCCTGTAGATATTGTGGCAA

upper sequence: Vv12s0059g02310.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G32050.1 (Glycine max), 3'ss of exon 11
gtaggttaatatttctataattttctagttc--ttgttcttattttagtgcttgtgtcct---tcaaccaacatgcttaacc---attgtgaacatttc---tagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACTGATTCAACAGCCTCTTTCGTGATTTATGCTCCTGTCGATGTTGTTGCCA
     |  ||   |    ||  | | |  ||  |||      ||| ||      ||  ||   | ||  |   ||  |||||    ||   ||   | |    ||||||| ||||||||||| ||||||||||||||||| ||||| || ||  | || ||||| |  ||||| ||||| ||||||||||| ||| |||| || |
-----tctatgcctaggaaagatgcaaagtccattgcaaacgtttaagcaaacatgcactaagtgaataagtttgactaacctaagtttctaatggtgcatgcagAGTGCGAATTCAAGCCAAAGCAACATGTTGATATTACAAGAGAGTTGCGCGGACTCAACGGGATCTTTTGTGATATATGCTCCTGTAGATATTGTGGCAA

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|110418253|gb|EC984389.1|EC984389
EST:     TAGCGAATGGTCAAGACACAGGCAACTGTGTATCTCTGTTACGGGTAAAT                         AGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACT
genomic: TAGCGAATGGTCAAGACACAGGCAACTGTGTATCTCTGTTACGGGTAAATgtaggttaat ... acatttctagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttagtgcttgtgtccttcaaccaacatgcttaaccattgtgaacatttctagAGTGCAAATTCAAGCCAGAGCAACATGTTGATATTGCAAGAAAGCTGTACTGATTCAACAGCCTCTTTCGTGATTTATGCTCCTGTCGATGTTGTTGCCA
                              gcttaac  putative branch site (score: 3)
                                              catttct  putative PPT
                                            aacattt  TA-rich tract