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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG

Basic information

species Glycine max
transcript GLYMA20G28980.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G22890.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcatt--ttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG
                       |   || ||   ||   |  |||||         ||   ||| |       | |||  ||  |  |  ||||||||||||||||||||||||| || || || ||||| ||||| || || || |||||||| || ||| ||||||| || ||||| |||
----------------------gtatatacaattcgaa-aagattcacactttttgtttgacaatgtagagatctaattccttggtgtaactgcagGTTGCTGCATATGACAAGACGCAAGGCAAGATGGCTTTCTTCGATCCCTCGAGGCCTCAAGATTTCTTGTTCATCTCCGGCACTAAG

upper sequence: GLYMA20G28980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaattgagaatttgccttctcattagtataaactgagtgaagttc-------acttaggccactttgaaatatgtgttgatcattttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG
|||  |    |    ||   | ||      |||||  ||    | |       | ||||||   |||||  | ||  ||  |  |||  |||  |  | |||||||||| || || ||||| || || || ||||| |||||||| || |||||| ||||||||||| ||||||| || ||||| |||
gtatattcatagaaaccgcataat--actcaaacttggtatcttccttcaaagatttaggct-ttttgagttctg-atttctggtttcaattggt--gtagGTTGCTGCGTACGATAAGACACAAGGAAAGATGGCTTTCTTTGATCCCTCAAGGGCTCAGGACTTCTTGTTCATTTCTGGCACTAAG

upper sequence: GLYMA20G28980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G43780.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaattgagaatttgccttctca-ttagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttg--cagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG
    || |||     | ||   | ||  | | ||  ||   || |||  | |||     || || |      | ||  |||   ||  | ||   |||| |||||||||||||| |||||||| |||||||| |||||||| ||||| ||| |||| |||||||| ||||||||||| || |||
---gttaagatcaatcattgctacttcctcttaatcga--aaacttctttaaggg----tttaagt-----ctcattgtttcggtttgtatgaatagGTCGCTGCATATGACAAAACTCAGGGGAAAATGGCCTTCTTTGATCCTTCCAGGTCTCAAGACTTCCTCTTCATATCAGGAACCAAG

upper sequence: GLYMA20G28980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 3
gtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactt-tgaaatatgtgttgatca----ttttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG
    |  | ||  |    |  |  |  |  ||||| |     | |  | |     | || |||||| |||     |||    ||    |  | |||||||||||||||||||| || ||||||  |||||||||||||||||| || |||||| |||| |||||||| |||||||| |||||||||
---gtatataaactattgtagctcttatg-aaactcaaaattgctttcctgtttaatttatgaaatctgtaggattcacaagttgaggtataattgcagGTTGCTGCATATGATAAAACTCAGAATAAAATGGCATTCTTTGATCCCTCAAGGGCTCAAGACTTCCTCTTCATATCTGGCACAAAG

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|27425279|gb|CA936799.1|CA936799
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|254330106|gb|GR839659.1|GR839659
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|15664848|gb|BI702219.1|BI702219
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|6566778|gb|AW234410.1|AW234410
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCANGGTAAAATGGCATTCTNTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|17518832|gb|BM187874.1|BM187874
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|17023944|gb|BM094978.1|BM094978
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|254327391|gb|GR837000.1|GR837000
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|7028493|gb|AW458276.1|AW458276
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|10238763|gb|BE807651.1|BE807651
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|4396152|gb|AI495149.1|AI495149
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGTTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|17023884|gb|BM094918.1|BM094918
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAG
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAG
EST: gi|14990878|gb|BI316551.1|BI316551
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|17023870|gb|BM094904.1|BM094904
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|254327390|gb|GR836999.1|GR836999
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|193661169|gb|FK600891.1|FK600891
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
EST: gi|23064610|gb|BU579383.1|BU579383
EST:     TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGG                         GTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA
genomic: TATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgaga ... tcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcagGTTGCTGCATATGACAAGACTCAGGGTAAAATGGCATTCTTTGACCCTTCAAGGCCTCAGGACTTCCTGTTCATATCAGGCACAAAG
                             tgttgat  putative branch site (score: 4)
                                      ttttcattc  putative PPT
                                     attttcattcattt  TA-rich tract