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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactctcatagttttgtctcatgtatttgtttttctgttttactcgtgaagatttaggtagttttaactaatagacgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTTTACGTTGACCCAGAGGCTAAACTTCTATTTATGATTCGTATCCGTGG

Basic information

species Vitis vinifera
transcript Vv09s0054g00010.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G44120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtactctcatagttttgtctcatgtatttgt-ttttctgttttactcgtgaagatttaggtagttttaactaatagacgacacat--ttttcatgc------agCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTTTACGTTGACCCAGAGGCTAAACTTCTATTTATGATTCGTATCCGTGG
||| |     |    | | |  |  || | |  |  ||    |    ||   | |   ||| ||| |||  |||  | || | ||  ||| |||||      || | || ||| |||| | ||||||||| ||||||||| |||| || || || ||||||||||| ||||||||  | || ||||| ||||||||||||||
gtaataaagcaacactcttttgttcatctttgctgactaagatgactgttctgttcatggttgttgtaatgaatc-atgatatattatttgcatgcttgtttagGATAACGAGTTGATCCGATTGAAGCGGGAGGCTAAGTTGAAAGGAGGTTTCTACGTTGACCCTGAGGCTAAGTTGCTCTTTATCATTCGTATCCGTGG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G13580.2 (Arabidopsis thaliana), 3'ss of exon 2
gtactctcatagttttgtctcatgtatttgtttttctgttttactcgtgaagatttaggtagttttaactaatagac--gacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTTTACGTTGACCCAGAGGCTAAACTTCTATTTATGATTCGTATCCGTGG
           || || |   |     ||  ||| |  ||||         ||   | | |  || |   |        |  || | |||  | ||| ||| |||  | || ||  ||||||||||||| ||  |||| || || ||||| ||||||||||| |||||||| || || || || |||||||||||
-----------gtatttttctacaagcttagtttgcaattttttctaatgtgagaaatgcaaattcattgagcgtttctgctacttgttttcttcagGAAAGGGAATTAATCCAGCTGAAGCGTGAGGCAAAATTGAAAGGAGGCTTTTATGTTGACCCAGAAGCTAAACTGCTTTTCATTATCCGTATCCGTGG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S243_40V6.1 (Physcomitrella patens), 3'ss of exon 1
gtactctcatagttttgtctcatgtatttgtttttctgtt------ttactcgtgaagatttag-gtagttttaactaatagacgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTTTACGTTGACCCAGAGGCTAAACTTCTATTTATGATTCGTATCCGTGG
||| | |  | || |    | || | ||  |    |  ||      ||     ||| | || |   | |  ||  |||||      || | | |   ||||| |||||||  ||||  | |||||| | ||||||||||||||||||||||| || || || |||||| |||| ||| | ||| | || |||||||||||
gtagtttttttgtgtgcgttaatctgttcatacgacaattgagctgttggctatgatgtttgattatggacttctctaattatgtccatactctc--tgcagGAAAAGGATTTGATCAATTTGAAGAGGGAGGCTAAGCTGAAGGGTGGATTCTATGTCGAGCCAGAGCCTAAGCTTATGTTTGTCATCCGTATCCGTGG

upper sequence: Vv09s0054g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S28_10V6.2 (Physcomitrella patens), 3'ss of exon 1
-------gtactctcatagttttgtctcatgtatttgtttttctgttttactcgtgaagatttaggtagttttaactaatagacgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTTTACGTTGACCCAGAGGCTAAACTTCTATTTATGATTCGTATCCGTGG
         | | |||  |  |  | | |   |  | | |   |||| | |||  |    |  | |   | |||| || |     |  | | | |  | ||| ||||||| |||||     ||||  | ||||| ||||||||||||||||| |||||||| |||||| | || ||| | ||| | ||||| ||||||||
attcaggtcattgtcaaggcgtgatgtaactgacgtttctccttgttct-ctcccggcactgaatgccttcttaa-tattgtggcatccttctcttttacagGAAAAGGAACTGATCACTCTGAAAAGGGAGGCCAAGCTGAAGGGTGGATTCTACGTTGAGCCAGAGCCCAAGCTTATGTTTGTCATTCGAATCCGTGG

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|161719010|gb|FC067630.1|FC067630
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|351030969|gb|FQ439005.1|FQ439005
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110427908|gb|EC994363.1|EC994363
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110362548|gb|EC926091.1|EC926091
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|71865492|gb|DT014547.1|DT014547
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|77588453|gb|DV223438.1|DV223438
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110686521|gb|EE064257.1|EE064257
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|71870639|gb|DT019694.1|DT019694
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|71873389|gb|DT022444.1|DT022444
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110362206|gb|EC925723.1|EC925723
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110360464|gb|EC923584.1|EC923584
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|161716946|gb|FC068826.1|FC068826
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|71873570|gb|DT022625.1|DT022625
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|161719477|gb|FC067687.1|FC067687
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|71873637|gb|DT022692.1|DT022692
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110387232|gb|EC951884.1|EC951884
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|161714799|gb|FC063247.1|FC063247
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
EST: gi|110365131|gb|EC928904.1|EC928904
EST:     AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAG                         CAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT
genomic: AACTGATTTACAGTAGAGCTAAGCAGTATGCAAAGGAGTACGAGGAGCAGgtactctcat ... tttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttactcgtgaagatttaggtagttttaactaatagacgacacatttttcatgcagCAAAAGGAGCTGATTCAATTGAAGCGTGAGGCTAAGCTGAAGGGTGGATTTTACGTTGACCCAGAGGCTAAACTTCTATTTATGATTCGTATCCGTGG
                          aactaat  putative branch site (score: 2)
                                         catttttc  putative PPT
                   tagttttaactaata  TA-rich tract