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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcag

Basic information

species Glycine max
transcript GLYMA20G28980.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g53230.1 (Oryza sativa), 5'ss of exon 3
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaatt----------gagaatttgccttctcattagtataaactga---gtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcag----------------------------------------------------------------------
||| |||  ||| || || || |||||||||||||| |||||||| || || ||||||||||| || || || |||   || || || |||||||||| ||||  |          ||  |  |  |   |  || | ||  |||     ||| ||||| || ||   ||| |  |   |||     | | |||   |     |||                                                                       
CCACCCAACTGAAAAGAGGGACCTGTATGATGCTGATCATGGGAAAAAGGTGTTGAGCATGGCTCCTGGGCTTGAGAAGCTCAATATCCTTCCTTTCAAGgtatgtcatcctaccagaccagatatcacattttttggatgcactagattgtgtagttcgct-agcttactgtccatcttgtacatttgaatttggatgtcaagcaacatattttagttttcagataaaccttgttgtattctttttcttggcatgactcctgatttgttttatcag

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G088348_T01 (Zea mays), 5'ss of exon 10
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgta-------------attgagaatttgccttctcattagtataaactgagtgaag--------ttcacttagg--------ccactttgaaatatgtgttgatc------attttcattcatttgcag---------------------------------------------------------------
||||||    |||||||| || || ||||||||||||||||||||||| || ||||||||||| || || || ||| | || ||||| |||||||||| ||||                 |||  |   | |  |||    ||  | ||||| ||         | || ||||          ||| |  | | |  |||  |||       |||| | | ||    |                                                                
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCATGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctcttccttccatgcacatccagtgagtaaaagaacgtattgcaattagcatttttcttcacatctatacacatgtcaatctttgatgtttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattccggatcag

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G051270_T02 (Zea mays), 5'ss of exon 4
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgta-------------attgagaatttgccttctcattagtataaactgagtgaag--------ttcacttagg--------ccactttgaaatatgtgttgatcattttcattcatttgcag----------------------------------------------------------------------
||||||    |||||||| || || |||||||||||||| |||||||| || ||||||||||| || || || ||| | || ||||| |||||||||| ||||                 |||  |   | |  |||    ||  | ||||| ||         | || | ||          ||| |  | | |  |||  ||| ||    ||  || |                                                                         
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCACGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctcttccttccatgcacatccagtgagtaaaagaacgtattgcaatcagcatttttcttcacatctatacacatgtcaatctttgatgttttttagttatcaagaaaatagaaagatttattgtttgtctgttttcttgacatttttcttgtctgttattccggatcag

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G302080_T01 (Zea mays), 5'ss of exon 10
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgta-------------attgagaatttgccttctcattagtataaactgagtgaag--------ttcacttagg--------ccactttgaaatatgtgttgatcattttcattcatttgcag----------------------------------------------------------------------
||||||    |||||||  || || |||||||||||||| |||||||| || ||||||||||| || || || ||| | || ||||| |||||||||| ||||                 |||  |   | |  |||    ||  | ||||| ||         | || ||||          ||| |  | | |  |||  ||| ||    ||  || |                                                                         
CCATCCCACGGAGAAAATGGACCTCTATGATGCTGACCACGGGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctcttccttccatgcacatccagtgagtaaaagaacgtattgcaattagcatttttcttcacatctatacacatgtcaatctttgatgttttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattctggatcag

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G089359_T01 (Zea mays), 5'ss of exon 1
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgta-------------attgagaatttgccttctcattagtataaactgagtgaag--------ttcacttagg-------ccactttgaaatatgtgttgatc------attttcattcatttgcag---------------------------------------------------------------
||||||    |||||||| || || |||||||||||||| | |||||| || ||||||||||| || || || ||| | || ||||| |||||||||| ||||                 |||  |   | | ||||    ||  | ||||| ||         | || ||||         ||| |  | | |  |||  |||       |||| | | ||    |                                                                
CCATCCCACGGAGAAAAGGGACCTCTATGATGCTGACCACGAGAAGAAGGTTTTGAGCATGGCTCCTGGCCTCGAGAGGCTCAACATCCTTCCTTTCAAGgtatgccatccttcctgaccagatctcttcctttcatgcacatccagtgagtaaaagaatgtattgcaattagcattttcttcacatctatacacatgtcaatctttgatgtttttagttatcaagaaaatagaaagatttattgtttgtctgctttcttgacatttttcttgtctcttattccggatcag

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G149952_T01 (Zea mays), 5'ss of exon 3
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgta--------------attgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcag
||| ||    |||||||| || || ||||||||||| || || ||||| || ||||||||||| || || || ||| | || ||||| |||||||||| ||||              |       |||  |||  |||   |||  | |||||  |   ||   |     |  | ||   | || ||  ||| || |  ||       
CCACCCCACAGAGAAAAGGGACCTCTATGATGCTGATCACGGAAAGAAGGTTTTGAGCATGGCTCCTGGCCTTGAGAGGCTCAACATCCTTCCTTTCAAGgtatgtcatcctatctgaccagatttttttctttccatgcatatgcagtgagtagaaaacaac-atattgcaattaacattttgctgcacatctttacaca-------

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: AT3G22890.1 (Arabidopsis thaliana), 5'ss of exon 3
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgagaatttgccttctcattagtataaactgagtgaagttcacttaggccactttgaaatatgtgttgatcattttcattcatttgcag
 |||||||| |||||| | ||||| || |||||||| ||||| ||||||||| | ||||||||||| ||||| || || || ||||| |||||||||||||||  |   | |        |    | | |    |     | ||  |  |      | |||   ||  ||  |                     
TCATCCAGTAGAGAAACGTGATCTTTACGATGCTGATCATGGAAAGAAAGTACTAAGCATGGCACCAGGACTCGAACGACTCAACATCCTTCCTTTCAGGgtatatacaattcgaaaagattcacactttttgtttgacaatgtagagatctaattccttggtgtaactgcag---------------------

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: AT4G14680.1 (Arabidopsis thaliana), 5'ss of exon 3
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgagaatttgccttctcattagtataaactgagtgaagttc-------acttaggccactttgaaatatgtgttgatcattttcattcatttgcag
 ||||| || |||||| | |||||||| |||||||| || |||||||||||  | |||||||| || ||||| || || || |||||||||||||||||||||  |    |    ||   | ||      |||||  ||    | |       | ||||||   |||||  | ||  ||  |  |||  |||  | |    
TCATCCCGTGGAGAAACGTGATCTGTACGATGCTGATCACGGGAAGAAAGTTCTAAGCATGGCTCCTGGACTCGAACGACTCAACATTCTTCCTTTCAGGgtatattcatagaaaccgcataat--actcaaacttggtatcttccttcaaagatttaggct-ttttgagttctg-atttctggtttcaattggtgtag--

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G43780.1 (Arabidopsis thaliana), 5'ss of exon 3
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgt---aattgagaatt--tgccttctcattagtataaactgagtgaagttcacttaggccactttga---aatatgtgttgatcattttcattcatttgcag
||||||    ||||| |||||||| |||||||| || || |||||||||||  | ||||||||||| ||||| || || || |||||||| || |||| |||    ||  |  |||  | | | ||| | |    |||||   | |||     ||| | | | |||      | ||| |  ||                   
CCATCCGACAGAGAAGAGAGATCTTTATGATGCCGATCACGGGAAGAAAGTGCTTAGCATGGCACCAGGACTTGAACGCCTCAACATTCTACCCTTCAAGgttaagatcaatcattgctacttcctcttaatcgaaaacttctttaag--ggtttaagtctcattgtttcggtttgtatgaatag-----------------

upper sequence: GLYMA20G28980.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv05s0020g04210.t01 (Vitis vinifera), 5'ss of exon 3
CCATCCAGTTGAGAAAAGAGATCTGTATGATGCTGACCATGGGAAGAAAGTATTGAGCATGGCACCGGGACTAGAGCGTCTAAACATTCTTCCTTTCAGGgtaattgagaatttgcc-ttctcattagtataaactgagtgaagttcacttaggccactt-tgaaatatgtgttgatca----ttttcattcatttgcag
||| ||||||||||| |||||  | ||||||||||||||||||||||| |||||||||||||| || ||||| || || |||||||| |||||||||| ||||  | |    |||    ||| || |     |||| |     | |  | |     | || |||||| |||     |||    ||    |  | ||||||
CCACCCAGTTGAGAAGAGAGACTTATATGATGCTGACCATGGGAAGAAGGTATTGAGCATGGCTCCTGGACTGGAACGGCTAAACATCCTTCCTTTCAAGgtatataaactattgtagctcttatga-----aactcaaaattgctttcctgtttaatttatgaaatctgtaggattcacaagttgaggtataattgcag

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