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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgccttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatttgtttttcttttgggttaaatttgttaatcatgctttctatgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC

Basic information

species Vitis vinifera
transcript Vv09s0002g00280.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G05170.1 (Glycine max), 3'ss of exon 2
gtatgccttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatttgtttttcttttgggttaaatttgttaatcatgctttcta---tgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC
                                          ||     || |  || ||  | |||   |      |||  || |  ||||   ||| |    |  || || |  || | || |  |||  |   || | |||||||| |||||||| ||||| || || || ||||| |||| |||||||||||||||||
------------------------------------------acgtggcatttccttttaataaataaaaagat---aaaaaaaatgatgat--atttatagaatatgtcaactgggtaattcttaattttaaatttgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCTCCAAGTGATATTCTTGAGTGGC

upper sequence: Vv09s0002g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G01680.1 (Glycine max), 3'ss of exon 2
gtatgccttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatt-tgtttttcttttgggttaaatttgttaatcatgctttcta---tgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC
                                             ||| ||    |  |    ||| | | ||    | || ||    ||||  | |||      |  || || |   | |  | |  |||  |   || | |||||||| |||||||| ||||| || || || ||||| || | |||||||||||||||||
--------------------------------------------caatcat----tggtgtggcatttccttttaatacataaaaaaatgatgatatttaaagaatatgtcaagtggataatgcttaattttaaaattgtatttgcagGAGCCAGTTTCTCATGTTGTGGCTCGTCCTTCACCGAGTGATATTCTTGAGTGGC

upper sequence: Vv09s0002g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G17280.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatgccttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatttgtttttcttttgggttaaatttgttaatcatgctttctatgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC
                             | ||||  | | |  |   |   | ||| | |   | |   | | |   |      ||||  |||||||  |||| ||| | | ||  |   |  || |||       | |  |||||||||| |||||||| ||||| || |||||||||||||| ||||| |||||||
-----------------------------tctatatgtgaatgttttct---tggttttggtttagagtaagtttcata------ttttcttttgttt--ctttgggggttatttaatatgttctgttttt----ggcctttagGAACCAGTCTCCCATGTTGTTGCTCGTCCTTCCCCAAATGACATTCTCGAGTGGC

upper sequence: Vv09s0002g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G50430.2 (Arabidopsis thaliana), 3'ss of exon 2
gtatgccttcttaatatgcccttttaaattgtataaataactactaattatatagttatagcacatatgcattctggaaatgaacttttgatttgtttttcttttgggttaaatttgttaatcatgcttt-ctatgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC
                                           ||   |   ||||| |      | |   |   ||| | |   ||||  | ||  | |   || ||  || | | ||   |||| | |  | || | |   |||||||||| || ||||| ||||| || |||||||||||||| |||||||| ||||
------------------------------------------gctctatgc-tagttttcatggtttttggtctaggataagtttttttcttatgaatgttactttgg--aagtatctttgacatgttctgttctggattgctagGAACCAGTCTCGCATGTTGTTGCTCGTCCTTCCCCAAATGACATTCTTGAATGGC

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|34543477|gb|CF511709.1|CF511709
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|161715609|gb|FC068353.1|FC068353
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|110730040|gb|EE106668.1|EE106668
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|294966722|gb|GW837741.1|GW837741
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|26257010|gb|CA808073.1|CA808073
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|110728958|gb|EE104982.1|EE104982
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|110713617|gb|EE089696.1|EE089696
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|110726385|gb|EE102119.1|EE102119
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|77587429|gb|DV222858.1|DV222858
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|110732339|gb|EE107537.1|EE107537
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
EST: gi|110721123|gb|EE097761.1|EE097761
EST:     AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAA                         GAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG
genomic: AAAAATCATGTGTCAAGCGCCTTCAGAAAGAATATAGAGCACTCTGTAAAgtatgccttc ... gaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttgtttttcttttgggttaaatttgttaatcatgctttctatgaacttgcagGAACCAGTTTCCCATGTGGTTGCCCGCCCTTCCCCAAATGATATTCTTGAGTGGC
                          tgttaat  putative branch site (score: 3)
                   ttaaatttgttaatca  TA-rich tract