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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaataaatggtgatttattcattgattcaaattttccatttgtgtgacttggtgggaacagtagtttggctggtatttccttttaatttagactttttgactgatactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTAATGGCGAAAGCTAACGTTGTTCTCAATCTTATTG

Basic information

species Vitis vinifera
transcript Vv07s0005g04440.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g04440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G18950.1 (Glycine max), 3'ss of exon 4
---------------gtagaataaatggtgatttattcattgattcaaattttccatttgtgtgacttggtggg--aacagtagtttggctgg----tatttcctttta--attta----gactttt---tgactgatactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTAATGGCGAAAGCTAACGTTGTTCTCAATCTTATTG
                |   |||  ||  || |  |   |||  ||   |||    || ||  || | |   ||  || |||  | ||  ||     ||||||  | |   ||||      || ||    ||| | |||    ||||| ||||| ||||||||||||||||| ||||||| |||  | || || || ||||| || || || |||||| |||| |||||||
gtagttaagataatgtttttatatgtgtagagtcctctcttgcctcctctttctttttggtcagaatggaaaggttaatagtgctatgtgtgtggattatttctatctgctatttgtgctaaccttccagtgattaatatgcccagATTGTACCCATGAAATACAATCCAAGGGATGAAAGTTCAGTAAAAGCTGTGATGGCTAAGGCCAATGTTGTTATCAACCTTATTG

upper sequence: Vv07s0005g04440.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G20360.1 (Arabidopsis thaliana), 3'ss of exon 4
gtagaataaatggtgattta-ttcattgattc--aaattttccatttgtgtgac-ttggtgggaacagtagtttggctggtatttccttttaatttagactttttgactgatactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTAATGGCGAAAGCTAACGTTGTTCTCAATCTTATTG
|||   ||     | |||||    | || ||   |   | | ||        || |   |   || |    |      | |       ||| || |    || ||| |||    |  ||| | |||||||||||||   |||||||||||||| | ||||| ||||| || ||||| || ||||| || ||| ||||||| ||||
gtaatgtattcttttatttaacataatgctttcgagggtatgcaacaaaaaaacatctttacaaaaaactatgcattggatcggcaaatttgatgtgtgtttgttgcctgtatattccagGTGGTACCAATGAAATTTGATCCAAGAGATGAAGACTCGATTAAGGCTGTCATGGCCAAGGCTAATGTCGTTATCAATCTAATTG
















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|161719785|gb|FC066692.1|FC066692
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTT-GGACAG                         ATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
EST: gi|161720302|gb|FC071155.1|FC071155
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAG                         ATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
EST: gi|161719288|gb|FC068264.1|FC068264
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAG                         ATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
EST: gi|77580795|gb|DV219305.1|DV219305
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAG                         ATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
EST: gi|110424142|gb|EC990498.1|EC990498
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAG                         ATAGTACCAATGAAATACAATACAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
EST: gi|71864241|gb|DT013296.1|DT013296
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAG                         ATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
EST: gi|161718481|gb|FC066331.1|FC066331
EST:     GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAG                         ATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA
genomic: GTTCTGAGGATTCTCATCGTCATCTTAAATTGATGGGTGATTTAGGACAGgtagaataaa ... atactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtagtttggctggtatttccttttaatttagactttttgactgatactatcagATAGTACCAATGAAATACAATCCAAGAGATGAAAATTCGATCAAGGCAGTAATGGCGAAAGCTAACGTTGTTCTCAATCTTATTG
                                        gactgat  putative branch site (score: 3)
                      ttttaatttagacttt  TA-rich tract