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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaaagaagattgtacttcatagtaaatttttgtctattggttacttcgttacttgtacaatattagattgcatggttccgtggtt...

Basic information

species Glycine max
transcript GLYMA20G19980.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 5'ss of exon 4
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaaagaagattgtacttcatagtaaat--ttttgtctattggttacttcgttacttgtacaatattag-attgcatggttccgtggtt
|||||||| ||||||||||| |||||||||| ||| |||||||||||||| || ||||||||||||||||||||||| || ||||||   ||||| ||||||| |  | | ||     |  |   |||     ||| |   |  || |||        |||  | ||  || || | ||| |  | | |  |      |  | 
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAGTCAAGAATGTTGGTGCAAGCCTTGTAAAGCAGGTTGCTAATGCGACCAATGATACTGCTGGAGATGgtatg--gctgtacttgtaccattctgttgagaatacttggtccttctgttagcattctacaactttggttatatattataaacaattccagaccatctcat-

upper sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 5'ss of exon 4
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgta-agctgatatatccaaagaagattgtacttcatagtaaatttttgtctattggttacttcgttacttgtacaatattagattgca-tggttccgtggtt-
|||||||| ||||||||||||||||   | |  ||||||||||||||||| || ||||| ||||||||||||||||| ||||| ||    ||||| |||||||  ||| |  | | |  | | | |  ||  |        | | || | |  |||  |||| ||     ||   ||  | ||||| | | | ||   |    
ACTGTTGCCAAGAGCATTGAATTCAGTAACAGGGTTAAGAATGTTGGTGCAAGCCTTGTGAAGCAGGTTGCTAATGCGACTAACGACACTGCTGGGGATGgtatggcttaactcttctcatatgctcatatattgcccatcaatcttcttttctgg--actt-gtattaggtttgatgatggattggaattgatctaagtcac

upper sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G416120_T01 (Zea mays), 5'ss of exon 3
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaaagaagattgtacttcatagtaaatttttgtctattggttacttcgttacttgtacaatattagattgcatggttccgtggtt----
|||||||| |||||||||||||| ||||||| ||| |||||||||||||| || ||||| || |||||||||||||| ||||||||    |||||||||||||   ||| ||       |  |||| |  || || || ||          |   |      | |  ||    | | ||   ||      ||||     |    
ACTGTTGCGAAGAGCATTGAATTTAAGGATAGAGTAAAGAATGTTGGTGCGAGCCTTGTGAAACAGGTTGCTAATGCAACTAATGACACTGCTGGTGATGgta---tgacatcctttgtgctgattttggtttattgtgaacaaagaatggtctctgtaaaagattattaaggagt-ttgtcttctgaacttccaaacatgtta

upper sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G458208_T01 (Zea mays), 5'ss of exon 3
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctga--tatatccaaagaagattgtacttcatagtaaatttttgtctat--tggttacttcgttacttgtacaatattagattgcatggttccgtggtt
||||| ||||||||||||||||| ||||||| ||| |||||||||||||| || ||||| || |||||||||||||| ||||||||    ||||| ||||||| |      | | |     |   ||||      |       ||| |||  |   | |||||   | || |  |   |  ||  ||  |||| |||  | || 
ACTGTAGCAAAGAGCATTGAATTTAAGGATAGAGTAAAGAATGTTGGTGCAAGCCTTGTGAAACAGGTTGCTAATGCAACTAATGACACTGCTGGCGATGgtatgacatcctttgtgtgctggttattgcgaacaaagaatggtttctgtaaaagattgttacagagctagtcttctcaacttccat-acatgtttc--ttgt-

upper sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G23990.1 (Arabidopsis thaliana), 5'ss of exon 3
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaaagaagattgtacttcatagtaaatttttgtctattggttacttcgttacttgtacaatattagattgcatggttccgtggtt
|||||||| || || ||||| ||||| || ||| ||||||| |||||||| |||||||| ||||||||||| ||||||||||||||||| |||||||||||||||     ||||   |    ||||| | |     ||  ||  ||||  |    || |     ||  |   ||||  | | ||   | ||   |  |  
ACTGTTGCCAAAAGTATTGAGTTCAAAGACAAAATTAAGAACGTTGGTGCTAGTCTTGTGAAGCAGGTTGCAAATGCTACTAATGATGTTGCTGGTGATGgtaag-----atatttcattttgattg-attatgcggttcatagttgtagaaactttgcaaaactatgtac-caatgcttgtttaacttgtcatgcag--

upper sequence: GLYMA20G19980.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
ACTGTTGCAAAGAGCATTGAATTCAAGGATAAAGTTAAGAATGTTGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgatatatccaaagaagattgtacttcatagtaaatttttgtctattggttacttcgttacttgtacaatattag-attgcatggttccgtggtt--------------------------
|||||||| ||||||||||| |||||||||| | ||||||| ||||||||||||||||| || ||||||||||| || || ||||| || |||||||||||||||        | ||| |  ||||  |     |  |   ||||||   ||||| |  || ||  | | |  | |  ||  | |   || ||  ||   |                          
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaatg--gattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag

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|19269094|gb|BM885350.1|BM885350
EST:     CAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATG                         GAACCACATGTGCTACAGTCCTTACACGAGCAATATTTACTGAAGGCTGCA
genomic: CAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGATGTGGCTGGTGATGgtaagctgat ... tgtcttgcagGAACCACATGTGCTACAGTCCTTACACGAGCAATATTTACTGAAGGCTGCA