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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatatcgcttttctacttagaattgagactttttctgtataacatcatggcccactgcttactgcttcttaacaccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTGTGCACACCTTTGCTTTGCATCCAG

Basic information

species Vitis vinifera
transcript Vv02s0025g02550.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0025g02550.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g43340.2 (Oryza sativa), 3'ss of exon 5
-------------gtatatatcgctttt-ctacttagaattgagactttttctgtataacatcatggcccactgcttactgcttcttaacaccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTGTGCACACCTTTGCTTTGCATCCAG
               |   ||  || || |    |   ||| |   ||||||| | |     |  |   || |    | | |   | ||     ||||||||||||||| |||||||| |||||||| || ||||| || |||||||| ||||||||||||||| |||| | || ||| ||  | ||||| |||
gtttgaaatgacatcaagcataactcttaccggatgctattcattttttttctctgttgggacccg---catttaaaattacacttcaattgtatgcagTTTCATTTGGCTTCAAGTCTGTGGATGATTATTACTCCAACTCAAGCAGCTCAGATTCCATAAAAAATGTTTCCATACCCTTATTGTGCATACAG

upper sequence: Vv02s0025g02550.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G100716_T01 (Zea mays), 3'ss of exon 5
gtatatatcgcttttctacttagaattg--agactttttctgtataacatcatggcc-cactgcttactgcttcttaacaccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTGTGCACACCTTTGCTTTGCATCCAG
|| |  | |    |   ||  |    |   ||   |  | | ||||   || ||  | || |    |   |   | ||    |||||||||||||||| ||||||||||||||||| || ||||| ||||||||||| || ||||| || ||  |||| |||| ||| || || ||||| |||
gtttgcagcaacgtctaacccaactgtactagctgtaatttctatagtttcctgttcacattcaagaggacacttcaatggtttgcagTTTCATTTGGTTTCAAGTCAGTGGATGATTATTACTCCAATTCAAGCAGCTCGGATTCTATCAAGGATGTTTGCATACCCTTACTGTGCATACAG

upper sequence: Vv02s0025g02550.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G01650.1 (Glycine max), 3'ss of exon 5
gtatatatcgcttttctacttagaattgagactt---tttctgtataacatcatggcccactgcttactgcttcttaacaccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTGTGCACACCTTTGCTTTGCATCCAG
|||| |  | ||  |  |   |   |||| |  |   |  |  |     || ||  |        ||||  |   | |  | | |||||||| |||||||||||||| ||||| || ||||| |||||||||||||||||||||||||||||||||||  | || ||||||||||||||||||
gtatgtgcccctacttaatggaagcttgatagatagatcacaattgtgaattatctctgctcagatactcatatgtgaggcttcgcagTTTCTTTTGGATTCAAGTCTGTGGACGAATACTATTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTTAGAACCCCTTTGCTTTGCATCCAG

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|71866250|gb|DT015305.1|DT015305
EST:     AGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
genomic: AGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
EST: gi|28961249|gb|CB340635.1|CB340635
EST:     GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCANNN
genomic: GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
EST: gi|71866513|gb|DT015568.1|DT015568
EST:     GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
genomic: GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
EST: gi|110388876|gb|EC953674.1|EC953674
EST:     GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
genomic: GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
EST: gi|110373722|gb|EC938021.1|EC938021
EST:     GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
genomic: GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
EST: gi|28961880|gb|CB340949.1|CB340949
EST:     GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
genomic: GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTT
EST: gi|349825263|gb|FQ417984.1|FQ417984
EST:     GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAG                         TTTCATTTGGATTCAAGTCAGTGGATGACTACAACTC
genomic: GGCTGCCAATGCCAAATCTGTTAGGGAGTTTGATGATGGATTAACTCGAGgtatatatcg ... caccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actttttctgtataacatcatggcccactgcttactgcttcttaacaccttgcagTTTCATTTGGATTCAAGTCAGTGGATGACTACTACTCTAATTCAAGCAGTTCAGATTCCATAAAACATGTGTGCACACCTTTGCTTTGCATCCAG
                                       tcttaac  putative branch site (score: 2)
          tataacat  TA-rich tract