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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA

Basic information

species Vitis vinifera
transcript Vv09s0002g04810.t01
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 15
gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttc-cagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
    | | ||||||   | |    | || ||| ||||  || | ||   |||   |   | |  | |  || |  |  ||      |||        ||  ||  ||||| ||||| |||| ||| ||||| || |||||||| ||||||||||||||||| ||||||||||| || ||||| || ||||| || |||||
---gtatatattgtgtgctc----catgcaagaatttttattt-tgttaatgtattttctattgtagtattttgtgcactacaaatttatcccgttgtacatttacagGTCACCACGATGTATCACTTGGATCGCCCTATGTACTTGTTGGGATATCTAGCGAATCAAAGCCGAGTTTATCTTATTGACAAGGAATTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G443953_T03 (Zea mays), 3'ss of exon 16
-gtattgtgtattgtccacccttgtcttgaaagtatttc-catatgtgcagatgatatcc-atttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
  ||     || | | |||| |  |||  | | | ||      || |     ||||  |  |     |    || |  | ||| | |  |||      ||| |||| ||||| || ||||||||||| ||||| |||||||||||||| || |||||||| ||||| ||||| || || ||||| || ||||| || || ||
gttaacacttaat-ttcaccataatctgtagaatcttgaatgcatatctgtttgattcctgagagtgtttggttttatgtgctatctatttaccatctcatgtgttacagGTTACTACAATGTTTCACTTGGATCGGCCTATGTATTTATTAGGATATCTTGCTAACCAAAGTCGTGTATATCTTATTGACAAGGAATTTAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GRMZM2G000645_T01 (Zea mays), 3'ss of exon 15
----gtattgtgta-ttgtccacccttgtcttgaaagtatt-tccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttc-cagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
     ||| || |  | |   ||  || |  ||     ||| || ||||| |||  | || || ||  | |  ||| |||  |      | |||| | | |  |||  |  ||||| || ||||||| ||||||||| || |||||||| |||||||||||| | || || ||||| || || ||||| || ||||| ||||| ||
gtaaatatagtctgctcgaaaacatttcttctgtttaaattctctatatgggcacttcatgtc-atgacttcaattgcttaca------tagttata-agctttatacttacagGTCACTACAATGTATCATTTGGATCGCCCTATGTACTTGTTGGGATATATTGCGAACCAAAGTCGAGTTTATCTTATTGACAAGGAGTTGAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 15
-------gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
        | || |   || |  |    |   || |||  |      |   | |   | |  |  | | |  ||||     |     ||  |    ||| |  ||   ||  ||||||| || ||||||||||||||||| |||||||| |||||||||||||| || || ||||| || || ||| | || ||||||||||| ||
gtattaactcttttcccttctagatttctagtttaaaaaaagaattgtgcattctttttaattgaactacgaggatcatgagacatcttgatacataatgattatgaattt-agGTAACTACGATGTTTCATTTGGACCGCCCTATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA07G03890.2 (Glycine max), 3'ss of exon 4
------------------------------------------------------gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgt-tccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
                                                       | | |   ||  ||    |||    |  | | |||||  ||| || | ||    |  | | || ||||       |    | |||||  || ||  ||||  |  |||| || |||||||||||||||||||| |||||||| |||||||||||||| || |  |||||   ||| ||| | ||||||||||| |||||
gtatttatacttttcccttttagattcaaaagagctctgtatttatttattgaactctcggtaatcatcttttctttgtcttcatgaatttct-tatatgtatatttattgaactacaaggatcataca-attcctgttgttgcattacattatggatttagGTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATAGACAAAGAATTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 15
---------------------------------------------------gtattgtgtattgtccacccttgtct-tgaaagt-atttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgt-tccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
                                                   | | | | | || ||  |  || | | ||    | | || | ||| || | ||    |  | | || ||||       |    | ||| |  || ||  ||||  |  |||| || |||||||||||||||||||| |||||||| |||||||||||||| || |  |||||   ||| ||| | || |||||||| |||||
gtatttactcttttcccttttagattctaaagagctccatatttatttattgaactctttgttatcatcttttctttgtgttgatgaatttcttatatgtatatttattgaactacaaggatcataca-attcctgttgatgcattacattatgaatttagGTTACTACAATGTTTCATTTGGACCGTCCTATGTACTTGTTGGGATATCTTGCCAGCCAAAGTAAGGTCTATTTGATGGACAAAGAATTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: GLYMA13G43680.1 (Glycine max), 3'ss of exon 15
gtattgtgtattgtcca--------cccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
|||||   | || |||           || || |  |||  | ||    ||       | || |  | | || ||||     |     ||  ||   ||| |  ||   ||  ||||||| || ||||||||||||||||| || ||||| |||||||||||||| || || ||||| || || ||| | || ||||||||||| ||
gtattaactcttttcccttctagatttctagtttaaaaaagaattgtgcattcttttttaat-tgaactacaaggatcatgagacatcttgatgcataatgattatgaattt-agGTAACTACGATGTTTCATTTGGACCGCCCCATGTACTTGTTGGGATATCTTGCAAACCAAAGTCGTGTTTATTTGATTGACAAAGAGTTTAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 19
gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
       |||  |  ||    |       | || |||  | |    |   | || |   ||   | | | |  | ||| ||   |  |       | ||| || |||||||| ||||||| |||| ||||||| |||||||| |||||||| ||||| |||||||||||| |||| ||| | || ||||||||||||||
-------gtaaggctcatttct-------aggtttttggaaagaaacgttttatgttttttattttgttgtaattgagattcagtactcc----tcttatattacagGTAACTACAATGTATCATCTGGACCGTCCTATGTACTTGTTGGGTTATCTCGCTAATCAAAGCAGGGTTTATTTGATTGACAAAGAGTTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 15
gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
       ||||||| ||    |||        || |   || || | || || |||  | |    |||||     ||   |  ||| |||   | | ||  | | ||||||||||||||| |||||||||||| || |||||||||||||||||||| || | |||||| ||||| |   |  |||||||||| |||||
-------gtattgtgcatatatgtt----ggttactctgatttg-gaagttgttatgaact----ggattctaatga---tggttgctaac--atcgta-atactagGTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTGGGATATCTTGCAAGTCAAAGTCGGGTTTTCTTGGTAGACAAAGAATTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 15
gtattgtgtattgtccacccttgt-cttgaaagtatttccatatgtgcagatgatatccatttcatggatttc-ttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
                      || ||  | ||| | |   ||| |  |      |||   || |||   | | ||  |   |   || |||   |||   |||  |||||||||||||||| |||||||||||| || ||||||||||| || ||| | || || ||||||||||| ||  |  |||||||||| |||||
----------------------gtactcaagagtctatttttatttcta------atcatctttatgagctacattatataatagctgctaatatacc---tgtggcagGTAACCACAATGTATCATTTGGACCGCCCAATGTATTTGTTAGGCTATATTGCCAACCAAAGCCGGGTTTACTTGGTAGACAAAGAATTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: EFJ36319 (Selaginella moellendorffii), 3'ss of exon 10
gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
                                                       ||   ||  || |||   | |    | ||||||  | | |    | ||||||||||| || |||| |||  |||||  ||| ||||||||| | || ||||| || ||||||||||| |||||||| || ||||| ||||||||
------------------------------------------------------gtctgcttt-tgtatt--gtcgtttatatttgtttcaca-cttcctcttccagGTAACTACTATGTATCACCTGGACAAGCCAATGTATTTGCTTGGCTATCTGGCAAATCAAAGCCGAGTGTATCTGATCGACAAGGAGTTCAA

upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 15
lower sequence: EFJ09529 (Selaginella moellendorffii), 3'ss of exon 10
gtattgtgtattgtccacccttgtcttgaaagtatttccatatgtgcagatgatatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
                                                       ||   |||   | | || |  |  ||| || | | | | ||   | ||||||||||| || |||| |||  |||||  ||| ||||||||| | || ||||| || ||||||||||| |||||||| || ||||| ||||||||
------------------------------------------------------gtctgcttctgtgttgtcgtttatatttgtt-tcacacatcc---tcttccagGTAACTACTATGTATCACCTGGACAAGCCAATGTATTTGCTTGGCTATCTGGCAAATCAAAGCCGAGTGTATCTGATCGACAAGGAGTTCAA

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|351030017|gb|FQ430759.1|FQ430759
EST:     TCATTTACAACAACTCCTCTTGGCGGCTTAATTACTGTGTTGGTGGTGAG                         GTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTA
genomic: TCATTTACAACAACTCCTCTTGGCGGCTTAATTACTGTGTTGGTGGCGAGgtattgtgta ... tatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTA
EST: gi|161716849|gb|FC068107.1|FC068107
EST:     TCATTTACAACAACTCCTCTTGGCGGCTTAATTACTGTGTTGGTGGTGAG                         GTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTA
genomic: TCATTTACAACAACTCCTCTTGGCGGCTTAATTACTGTGTTGGTGGCGAGgtattgtgta ... tatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatccatttcatggatttcttggagcttttttgttaaataaccatatgttccagGTAACCACAATGTTTCATTTGGACCGGCCTATGTATTTGTTGGGATATCTAGCTAATCAAAGCCGGGTGTATCTCATAGACAAAGAGTTCAA
                                    aaataac  putative branch site (score: 2)
                           ttttttgttaaataac  TA-rich tract