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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACTTGCAAAAGATTTTGTAGTGGCTGGCACTGCATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcgaaattcaatttgttgcctttgatgttgcttttttttttttagaatttgcaaattcctgcagttatatctatattttgtttgtattgcttg...

Basic information

species Glycine max
transcript GLYMA04G42830.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G42830.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g08520.1 (Oryza sativa), 5'ss of exon 5
GGAACTTGCAAAAGATTTTGTAGTGGCTGGCACTGCATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcgaaattcaatttgttgcctttgatgttgcttttttttttttagaatttgcaaattcctgcagttatatctatattttgtttgtattgcttg--------
|||||| || ||||||||||| ||  |||||||||| || || || || ||||||||||||||||| |||| ||||||   ||||||| || |  | ||  ||  | |   |      ||   ||  || |  || |   |     |   ||| |   ||  |  | || |||    |||   |         
GGAACTAGCGAAAGATTTTGTGGTTTCTGGCACTGCTTCAGAATCACTATATGGTGCTTGTGAGTCCATGTATAAGCCAAGCATGgttagttt--acatgaaaactatctgcagaatggtattttacttatagtttggtctccttgagcactgtaaacatgacatttttctgtcacaattttctttggtgaag

upper sequence: GLYMA04G42830.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g43570.1 (Oryza sativa), 5'ss of exon 6
GGAACTTGCAAAAGATTTTGTAGTGGCTGGCACTGCATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttg--tctcgaaattcaatttgttgcctttgatgt-tgcttttttttttttagaatt-tgcaaattcctgcagttatatctatattttgtttgtattgcttg
|||||| || || ||||| || ||  | || || ||||| |||||||| ||||||||||||||||| ||||  || ||  ||||||| ||  | |     ||    |  |  | |||      ||     || ||| | | ||      |    ||  ||  || ||    || |||||| ||      
GGAACTAGCTAAGGATTTCGTTGTATCGGGGACAGCATCGGAGTCTCTATATGGTGCTTGTGAGTCCATGTACAAACCAAACATGgtatgcatttgtttgtttgtatgatcacatttagcccgtgtaacattctttatgggataacatcatgggctatagcaatttcgcatttctgtttggatct----

upper sequence: GLYMA04G42830.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G117544_T01 (Zea mays), 5'ss of exon 5
GGAACTTGCAAAAGATTTTGTAGTGGCTGGCACTGCATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcgaaattc---aatttgttgcctttgatgtt--gcttttttttttttagaatttgcaa-attcctgcagttatatctatattttgtt-tgtattgcttg
|||||| |||||||||||||| ||  | || ||||| || ||||| |||||||||||||||||||| |||| ||||||  |||||||| || ||   |  |   || | | | |     |  ||   ||     || |||  | ||||     ||  || |  ||| |   |||| | || ||| |      
GGAACTAGCAAAAGATTTTGTGGTCTCCGGTACTGCTTCAGAGTCACTTTATGGTGCTTGTGAGTCCATGTATAAGCCAAACATGgttagtttctttacacgagaactcgatacagaaaacctttaactgccaattctttctagtttgagttgtttttgaaagtat-ttggtattctattatgtgt------

upper sequence: GLYMA04G42830.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv18s0001g02260.t01 (Vitis vinifera), 5'ss of exon 5
GGAACTTGCAAAAGATTTTGTAGTGGCTGGCACTGCATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcgaaattcaatttg-------ttgcctttgatgttgcttttttttttttagaatttgcaaattcctgcagttatatctatattttgtttgtattgcttg--
||| ||||| ||||||||||| || ||||| ||||| || ||||||||||||||||| || ||| | ||||| ||||| ||||||||||||||| | ||| || |||       || |  ||||  |    |||| ||||||  | ||   || ||||      |||   |  | | |||     |  | |   
GGAGCTTGCTAAAGATTTTGTTGTTGCTGGTACTGCCTCTGAGTCTCTTTATGGTGCCTGCGAGGCCATGTTCAAGCCCGACATGgtttgtctcaatattaaacttgaattaattttctattgaaatcctattttatttttttaagtt---aagttcca-----tatgcttggaatgtgtgaac-tcacatatg

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|16343834|gb|BI969429.1|BI969429
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|16996875|gb|BM086247.1|BM086247
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGA
EST: gi|214005797|gb|DB985945.1|DB985945
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|298166167|gb|HO009138.1|HO009138
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|298176811|gb|HO023284.1|HO023284
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|16348632|gb|BI974227.1|BI974227
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|193694360|gb|FK629504.1|FK629504
EST:     CTTGTGAGGCGATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|8401459|gb|BE057093.1|BE057093
EST:     CATCCGAGTCTCTGTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|192322314|gb|FK014555.1|FK014555
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|192325513|gb|FK018424.1|FK018424
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|151409085|gb|EV278893.1|EV278893
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|7588098|gb|AW703901.1|AW703901
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTGTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|17963651|gb|BM270398.1|BM270398
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|8283379|gb|BE020940.1|BE020940
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|298178421|gb|HO024156.1|HO024156
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|213605503|gb|DB968761.1|DB968761
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|6567370|gb|AW234981.1|AW234981
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|151397166|gb|EV267039.1|EV267039
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|151411912|gb|EV281723.1|EV281723
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
EST: gi|16343936|gb|BI969531.1|BI969531
EST:     CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATG                         GAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA
genomic: CATCCGAGTCTCTTTATGGTGCTTGTGAGTCAATGTTTAAGCCTGACATGgtttgtctcg ... tgtgactcagGAACCAGAAGAATTGTTCGAGACAATCTCCCAAGCACTGCTATCATCTGTA