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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA

Basic information

species Vitis vinifera
transcript Vv09s0002g02470.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtt-tgcaccaccctttgctcactaggct--ctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                               || | || | ||  ||    |||| | |    |  ||| ||| || |  |   |  |  |||  |  |    || | | ||||||| |||||||||||||||||||| || ||||| || || ||||| |  |||||||| ||||||||||| ||  |||||||||| || || |||||||
-------------------------------gtatattgtacaagactaactgcttagtgaagtacctgtaat-ttctgttgtttaactaatttgtcttgtcatgcgattagTTTGATTATCTGAAGAGCTTGGAAATTGAAGAGAAGATTAACAAGATAAAGTGGTGCCAAACAGCAAATGGAGCATTGTTTCTTCTGTCCACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
     |    ||| |  |  |  |||       ||||||    |   |||   | ||| |  | || ||   |   ||  |||     ||| | |    |||| || ||||||| || || || || ||||||||||||||||| ||||| |||||||| |||||||||||||| |||  | | || |  ||||| ||||| |||||||
----atgaagcattacattattgtgctatgctcttgttttgttcttgcttgaattacttgcatatggaa-actcacatctatgtttttttgatgaa---ctgttct-agTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATCAGGTGGTGCCAGACAGCCAATAATTCACTCTCCCTTCTGTCTACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G165418_T02 (Zea mays), 3'ss of exon 4
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
       |    |  |  | | |    ||   ||  | |   |   |      | |        |||| |  | | |  | | | |  ||   | |  |   ||   |||||||||| || || || |||||||||||||| || ||||| | |||||  |||||||||||||| ||   ||| || |  ||| | ||||| |||||||
-------tgctgtatgccagtaccatgtgctattcttgtttcctttcaaaaattaatggtagattgaagttatgtcagggttcctattttttatgtaattcttgt--agTTTGACTACCTCAAAAGTTTGGAAATAGAGGAAAAGATCAACAGGATCAAGTGGTGCCAGACAGCCAACAATGCTCTCTCCCTTTTGTCTACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
               ||   | ||  |  |  ||  |  |    |   ||||          |||||| |  || || |  ||  | | || |  |  | ||   ||||||||| ||||| |||||||||||||| || ||||| || ||  | || | |||||| ||  |||||||||||||  ||| ||||||||| || ||||| |
---------------gtatattctcacaaacattgttaagtggtattatttgtct-------tctgaattacttgaaatt-tgataaagtgatgttgttatggaatcagTTTGATTATCTTAAGAGCTTGGAAATTGAAGAGAAGATTAACCAAATAAAATGGTGTCAAGCAGCAAATGGTGCATTGTATCTTCTATCCACAAATGACA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G02640.1 (Glycine max), 3'ss of exon 3
gtatttctttcatcagttactcctgcctga--agtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
               || |        ||   |||    |||||||| | |    |     || || |||  ||    ||| ||     | ||  |  ||  |||  ||||||||||||||| ||||| ||||| || || ||||||||||| || |||||||||||||| ||||| |||||||||||||| ||||| ||||| |||||||
---------------gtaatcatcatttggtcagtaatgttgcaccaacatcctat-----gggtcagaagagtcaatatttata----aatgtatgatcattgt-ttcagTTTGACTATCTTAAGAGTTTGGAGATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAACAGCTAATGGTGCCCTGTTCCTTCTTTCTACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G42800.1 (Glycine max), 3'ss of exon 3
gtatttctttcatcagttactcctgcctga--agtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
               || |        ||   |||    |||||||| | |    |     || || |||  ||    ||| ||     || | | ||| | |     |||||||||||||| ||||| |||||||| || ||||||||||| || |||||||||||||| | ||| ||||||||||| || ||||| ||||| |||||||
---------------gtaatcatcatttggtcagtaatgttgcaccaacatcctat-----gggtcagaagagtcaatatttataatgtat-gatcattgttt-----cagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGATGGTGCCAAATAGCTAATGGTGCCCTCTTCCTTCTTTCTACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G20830.4 (Glycine max), 3'ss of exon 3
gta--tttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
|||  ||||  |||   |||| | ||||||||| |   | || | ||                    ||||||||   ||| ||| ||  | | || || | |     |||||||||||||| ||||| ||||||||||| |||||||| || || |||| ||||||||| ||||| ||||||||  |||| |||||||| || |||||||
gtaattttcagtcactggttaatgctgcctgaaatgcttgtggagca--------------------gaaatgttaacatttatgacatgt-gattgttgttt-----cagTTTGACTATCTTAAGAGTTTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCCAATGGTGCTTTGTTCCTTCTATCCACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 3
gta--tttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
|||  ||||  |||   |||| | ||||| ||| |   | || | ||                    ||||| ||   ||| ||| |   | | || || | |     |||||||||||||| |||||  |||||||||| |||||||| || || |||| ||||||||| ||||| ||||||||  |||| |||||||| || |||||||
gtaattttcagtcactggttaatgctgcccgaaatgcttgtggagca--------------------gaaatcttaacatttatgacttgt-gattgttgttt-----cagTTTGACTATCTTAAGAGTCTGGAAATAGAAGAGAAAATTAACAAAATCAAATGGTGCCAAACAGCTAATGGTGCTTTGTTCCTTCTATCCACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 3'ss of exon 3
gtatttctttcatcagttactcctgc-ctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgat--gccacattgcttattc-tctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                       | |  | ||  || |   |||||   ||  || || ||    ||   |  || |  |  |     |  |||||| |   |||||  ||||||||||||||| ||||| ||||| ||||||||||||||||| || ||||||||||| ||| |||| ||||||||  ||||||| || ||||| || ||||
----------------------gtacattaaaacttat---caccagatttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatctgt-ttcagTTTGACTATCTCAAGAGTTTGGAGATAGAGGAGAAAATCAACAAAATCAGATGGTGTCAGCCAGCTAATGGTGCATTGTTTCTGCTTTCTACAAACGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 3'ss of exon 5
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctg-----aaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                            | | ||  ||| | |     | | || |||  ||| |      | |  |||||  ||      |||    ||| ||   |   |||||||| || || ||||| ||||| |||||||||||||| || || || |||||||| || ||||||||||| || || ||||| || || || |||||||
----------------------------gtatttgatttactctgttttcttcttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtttaccagTTTGATTACCTCAAGAGTTTGGAGATAGAGGAGAAAATTAACAAAATTAGATGGTGTCAAACAGCAAATGGAGCTCTTTTTCTCCTCTCGACCAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S301_53V6.1 (Physcomitrella patens), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgct-cagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
|   || ||     |   | |   || |  | ||||||       | ||| | |  |   | |||  |   |  | ||   |||    |||  |||  |  ||  | |||||||| ||| ||||||| ||||||||||||||||| |||||||| || || ||||||||||| || |||| ||| | ||| || || ||||| ||||| |
gggattgttctgagatacagtatggcgttgattttgtt------gcacttcgtttcc--agttct--atcttactgatgcctgcttttttgaatatgtttggttatgcagTTTGATTATTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGGTGGTGCCAGACTGCTAATGCTGCTCAGTTCCTACTTTCTACAAATGACA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S167_51V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------------------------------gtatttctttcatcagttact--cctgcctgaagt--ttgtttgcaccacccttt-----gctcactaggctctgaaatg--tttta----attgatgccacattgcttat---------tctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                                                       || || | |      ||  |    | | | || |  || | |  ||  | ||||       | |||| | |   || |    ||||    |||||         | |||          | ||| |   |||||||| ||  ||||||| ||||||||||||||||| |||||||| || |||||||| ||||| || || |  || | |||  |  | ||||||||||| |
gtaatgttagcaacgctaaggtgagtcgtggtaatttttcaagattgcgcccacatagttttctagaatattgatagtttccttaaaatcattatatcaacttctctttttcatatttactaagtttgcaagttatctttatcatattgaccgtgttcggtttacgatactgtatttctttctgcagTTTGATTACTTGAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGTCAGACTGCCAACGCCGCTCAGTTCTTAATTTCTACGAATGACA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S10_312V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------------------------gtattt--ctttcatcagttactcctgcctgaagtttgtttgcacca---------ccctttgctcactag-----gctctgaaatgttttaattgatg--ccacattgcttatt-ctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                                                 | |||   ||  |   || ||  |   |  |||||| | ||  |||            ||| || | | |     ||  ||| | |||| |  |  ||  |    ||| ||  | || | ||  |||||||| ||  |||| || |||||||| |||||||| |||||||| |||||||||||| | ||  | ||||||||||  || || || || || |||||||
gtacgttcttgcacttctcttgagcgttagatttccatgtttcactttatttttggtttctacgtgtcacctcaatcataagtttctatgtgccaggtggagcatttttttctgatttgttgtagcattgacaagtttgatgtcttgaactgttttgtttggtactttttgtgcagTTTGATTACTTGAAAAGTTTGGAAATTGAGGAGAAGATCAATAAAATCAGATGGTGCGACACTACTAATGGTGCCCGATTGCTGCTCTCCACAAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 3'ss of exon 3
gtatttctttcatcagttact-cctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacattgcttattctctgtgct-cagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
       | |     | ||||   || | | | |    |||||  || ||| | |    |  |     | | |   ||    |||     ||  | |  | |||  | ||||| || || |||||||| ||||||||||||||||| ||||| || || ||||||||||||||  | |||| ||||| |||||| || ||||| ||||| |
-------tgtgtagggatactgtttgacggtaatccagttgcattacactt-gttggtcaatcct---attttacgaacacgtgcttttctgaatgtattttgttatgcagTTCGATTACCTGAAGAGTTTGGAAATAGAGGAGAAGATCAACAAAATAAGATGGTGCCAGACCACCAATGCTGCCCAGTTTCTACTTTCTACAAATGACA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S425_2V6.1 (Physcomitrella patens), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggctctgaaatgttttaattgatgccacatt-gcttattctctgtgct--cagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
         | ||  |||         |||   || |||| |  |   | |  | | |    | |||| |    | || | |  ||| || |  ||| ||   |  |  |||||||| ||  | ||||| ||||||||||||||||| |||||||| || |||||||||||||| || ||||  || | |||||| || ||||| |||||||
---------ttatttgttgtgttgttttga---ttttttgaaaaaaattgtaataattttaatttgaagttcactgatcgttttcactttcgtatatgcttcttctttgcagTTTGATTACTTAAAGAGTTTGGAAATAGAGGAGAAGATCAATAAAATTAGATGGTGCCAGACTGCCAATGCCGCTCAGTTTCTACTTTCTACCAATGATA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ09063 (Selaginella moellendorffii), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggct-ctgaaatgttttaattgatgccacattgcttattctctg---tgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                                                |  |||  ||       ||||  ||     ||||||| ||||| ||| |  | ||   | | ||||||||||| || |||||| |||| |||||||| || ||||| || ||||||||||| || || || || || || |  ||| || |||| || ||||| |
-----------------------------------------------gtgcgcttgctctatcgttgaagcgt----gttgatgctacattacttttgttttggcttccccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

upper sequence: Vv09s0002g02470.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ08844 (Selaginella moellendorffii), 3'ss of exon 3
gtatttctttcatcagttactcctgcctgaagtttgtttgcaccaccctttgctcactaggct-ctgaaatgttttaattgatgccacattgcttattctctgtg-----ctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                                                |  |||  ||       ||||  ||     ||||||| ||||| ||| || | | ||     | ||||||||||| || |||||| |||| |||||||| || ||||| || ||||||||||| || || || || || || |  ||| || |||| || ||||| |
-----------------------------------------------gtgcgcttgctctatcgttgaagcgt----gttgatgctacattactttttttttttggcttccccagTTTGACTACCTCAAGAGCCTGGAGATAGAGGAAAAGATCAACAAAATCAGATGGTGTCACACGGCTAACGGCGCTCGTTTTGTTTTATCCACTAATGACA

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|71858308|gb|DT007363.1|DT007363
EST:     GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAG                         TTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
genomic: GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAGgtatttcttt ... ctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
EST: gi|161716360|gb|FC066871.1|FC066871
EST:     GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAG                         TTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
genomic: GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAGgtatttcttt ... ctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
EST: gi|161714603|gb|FC064207.1|FC064207
EST:     GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAG                         TTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
genomic: GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAGgtatttcttt ... ctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
EST: gi|161719206|gb|FC066075.1|FC066075
EST:     GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAG                         TTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA
genomic: GGCATCCCGAATTTCGTTATAAAACTGAGTTTCAGAGCCATGAACCTGAGgtatttcttt ... ctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cactaggctctgaaatgttttaattgatgccacattgcttattctctgtgctcagTTTGACTATCTGAAGAGCTTGGAAATAGAGGAGAAAATCAATAAGATCAGATGGTGCCAGACAGCAAATGGTGCCCTGTTTCTTCTATCTACGAATGATA
                                     cttattctct  CT-rich tract
            aaatgttttaattgat  TA-rich tract