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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAATTCTAATGGATGCAACCTTGCGGTGGATATATGGAGTCTTGGATGCACAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaacttatgtcaatatatcagagcttacattaatttcttttatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacag

Basic information

species Glycine max
transcript GLYMA20G30100.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G30100.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 5'ss of exon 9
AAATTCTAATGGATGCAACCTTGCGGTGGATATATGGAGTCTTGGATGCACAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaacttatgtcaatatatcagagcttacattaatttcttttatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacag
||| || ||||| |||||||| || || || ||||||||| | |||||||| ||  |||| ||||||||| | ||||| || |||   |||||||||||||||||||  ||||     |    || || |||  ||  | | |  |||   |  | |   ||||     |   | ||    |||    ||  |   |||  ||| ||                                                                       
AAACTCAAATGGGTGCAACCTAGCTGTTGACATATGGAGTTTGGGATGCACTGTCCTGGAGATGGCTACATCGAAACCGCCATGGAGCCAGTATGAAGGGgttagta--ttatacttctgaggcacagtttat-ttgttctataatatagataacctaattatg-----gtgattttcgccatgagtgaatgggatatggaaatgttc----------------------------------------------------------------------

upper sequence: GLYMA20G30100.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 5'ss of exon 9
AAATTCTAATGGATGCAACCTTGCGGTGGATATATGGAGTCTTGGATGCACAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaacttatgtcaatatatcagagcttacattaatttcttttatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacag
||||||||||||||| || ||||| || || ||||||||  | |||||||| ||||| || ||||||||  | ||||| || |||   || |||||||||||||||| |||||   |   | | |     ||          ||||||  |||  |   | |   ||||      ||| ||  | |   | | |   || | ||   ||||  |                                                                
AAATTCTAATGGATGTAATCTTGCTGTTGACATATGGAGCTTAGGATGCACGGTTTTAGAGATGGCTACCTCAAAACCACCATGGAGCCAATATGAAGGGgttagta-cttatactaggctcttaagctgta----------ttttatgtttttgtgcaacacacatttt---cttttcatgagaaggtactccctttggtcataaatatttga----------------------------------------------------------------

upper sequence: GLYMA20G30100.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G175504_T01 (Zea mays), 5'ss of exon 8
AAATTCTAATGGATGCAACCTTGCGGTGGATATATGGAGTCTTGGATGCACAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaacttatgtcaatatatcagagcttacattaatttcttt-tatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacag
||||||||||||||||||||||| ||| || ||||||||| | || ||||| ||  |||||||||||||  | || || || |||   |||||||||||||| ||||    |  |||  ||||   | || | |||  ||      | ||   ||  | |   |  |  |||  ||   | | || |   | || |||  ||                                                                             
AAATTCTAATGGATGCAACCTTGTGGTTGACATATGGAGTTTAGGTTGCACTGTCCTGGAAATGGCTACCTCAAAGCCACCATGGAGCCAGTATGAAGGGgtcagtattagacatcacaatat---aactgatatttcttctagagtgtcagatgtctggtgctcaagctgagttaacca-tctgcatttattgttgactattg---------------------------------------------------------------------------

upper sequence: GLYMA20G30100.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G093316_T01 (Zea mays), 5'ss of exon 9
AAATTCTAATGGATGCAACCTTGCGGTGGATATATGGAGTCTTGGATGCACAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaacttatgtcaatatatcagagcttacattaatttcttttatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacag
|||| ||| |||||| |||||||| || |||||||||||| | |||||||||||  | || ||||||||  | ||||| || |||   || ||||||||||| |||       || |  |  | | ||||   |||  | | || | |  |    |||  |   |  | |    |   | ||| |  | | |||  ||  |  ||||  |  |||                                                               
AAATGCTAGTGGATGTAACCTTGCAGTTGATATATGGAGTTTAGGATGCACAGTCCTAGAGATGGCTACTTCAAAACCACCATGGAGCCAATATGAAGGGgtcagt-------gttag-actttacagctataatttgtgt-ttctgtagtgaaatttcgt---tgctagggtaacacattatat-tagaatgc--atcttttttttcctgctaa---------------------------------------------------------------

upper sequence: GLYMA20G30100.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 5'ss of exon 8
AAATTCTAATGGATGCAACCTTGCGGTGGATATATGGAGTCTTGGATGCACAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaacttatgtcaatatatcagagcttacattaatttcttttatcctttgctttgatatgtatttgaagtatttaatatgtacaaagtgctgatgataatttttattataagcatgacacccttgtaatttatttcttattatgggttgatgtatttgcatgctatcataacag
 ||||| ||||| ||||||||||| |||||||| |||||||| || |||||||||||||||||||| ||||| ||||| || |||  ||||| ||||||||| |||||  |   | |||| ||   |  ||   || || ||     || ||   |||||  | |||   | ||  ||||  |     | || ||| | ||   | | ||                                                                    
GAATTCAAATGGTTGCAACCTTGCTGTGGATATTTGGAGTCTAGGGTGCACAGTTTTGGAAATGGCCACAACAAAACCACCCTGGAGTCAGTTTGAAGGGgtcagtaatatggataaatagattgaaaatt---ttgatatc-----tctttaaatttgaattttatcaaaggtcattaaagt---tgaggttctgcttatgtatatgatc-------------------------------------------------------------------

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|18690804|gb|BM519652.1|BM519652
EST:     CAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGG                         GTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACCATCCCT
genomic: CAGTTTTGGAAATGGCTACAACCAAACCTCCTTGGTTTCAGTATGAAGGGgttagtaact ... atcataacagGTTGCTGCCATGTTCAAGATTGGTAATAGCAAGGAACTCCCAACCATCCCT