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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatatccatactggattatactttattaaatcttcagcattggctactttgttattaataatgagggtacaatctaatttggcag

Basic information

species Glycine max
transcript GLYMA20G33910.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os10g32550.1 (Oryza sativa), 5'ss of exon 4
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatat---ccatactg--gattatactttattaaatcttcagcattg-gctactttg-ttattaataatgag-ggtacaatctaatttggcag
|| ||||| ||||||||||| |||||||| | |||||||||| | ||||| || ||||||||||||||||||||||| || |||||    ||||| ||||||| |    ||  |   |||| |||  ||  ||||||  |       | ||||||   | |||||| ||||  || || |    | | |    || |     
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAGTCAAGAATGTTGGTGCAAGCCTTGTAAAGCAGGTTGCTAATGCGACCAATGATACTGCTGGAGATGgtatggctgtacttgtaccattctgttgagaatacttggtccttctgttagcattctacaactttggttatatattataaacaattccagaccatctcat--

upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os03g04970.1 (Oryza sativa), 5'ss of exon 4
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgta-agctattatatccatactggattatactttat---taaatcttcagcattgg--ctactttgttattaataatgagggtacaatctaatttggcag-
|| ||||| ||||||||||||||||   |||  || |||||| | ||||| || ||||| ||||||||||||||||| ||||| |||   ||||| |||||||  |||    | | |  |   | | |||  ||     | |||||||     |||   |   ||    || || ||| |  |  |||  |  |  |    
ACTGTTGCCAAGAGCATTGAATTCAGTAACAGGGTTAAGAATGTTGGTGCAAGCCTTGTGAAGCAGGTTGCTAATGCGACTAACGACACTGCTGGGGATGgtatggcttaactcttctcatatgctcatatattgcccatcaatcttcttttctggacttgtattaggtttgatgatg-gattggaattgatctaagtcac

upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G416120_T01 (Zea mays), 5'ss of exon 3
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatatccatactggattatactttattaaatcttcagcattggctactttgtt-attaataatgagggtacaatctaatttggcag--------
|| ||||| |||||||||||||| ||||| | ||| |||||| | ||||| || ||||| || |||||||||||||| |||||||||   ||||||||||||| |  ||  | |   | ||| ||| |  ||||||        || || | ||   |     |||| ||| |||  |    ||| |  |  ||         
ACTGTTGCGAAGAGCATTGAATTTAAGGATAGAGTAAAGAATGTTGGTGCGAGCCTTGTGAAACAGGTTGCTAATGCAACTAATGACACTGCTGGTGATGgtatgacatccttt--gtgctg-attttggtttattgtgaacaaagaatggtctctgtaaaagattattaaggagtttgtcttctgaacttccaaacatgtta

upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G458208_T01 (Zea mays), 5'ss of exon 3
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatatccatactgg--attatactttattaa--atcttcagcattggctactttgttattaataatga-gggtacaatctaatttggcag-
|| || || |||||||||||||| ||||| | ||| |||||| | ||||| || ||||| || |||||||||||||| |||||||||   ||||| ||||||| |  ||  | |   | ||||  |||       |  ||   | |     |  |  |  |       || |  |      | | ||  |  ||    | 
ACTGTAGCAAAGAGCATTGAATTTAAGGATAGAGTAAAGAATGTTGGTGCAAGCCTTGTGAAACAGGTTGCTAATGCAACTAATGACACTGCTGGCGATGgtatgacatcctttgtgtgctggttattgcgaacaaagaatggtttctgtaaaagattgttacagagctagtcttctcaacttccatacatgtttcttgt

upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G23990.1 (Arabidopsis thaliana), 5'ss of exon 3
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatatccatactggattatactttattaaatcttcagcattggctactttgttat-taataatgagggtacaatctaatttggcag
|| ||||| || || ||||| ||||| |||||| | |||||  | ||||| |||||||| ||||||||||| |||||||||||||| || ||||||||||||||| ||||  ||    | || ||||| |  |    | |  |    | |   | |     ||| ||  ||||   ||  ||  |  |   ||||
ACTGTTGCCAAAAGTATTGAGTTCAAAGACAAAATTAAGAACGTTGGTGCTAGTCTTGTGAAGCAGGTTGCAAATGCTACTAATGATGTTGCTGGTGATGgtaagatatttcattttgattg-attatgcggttcatagttgtagaaact--ttgcaaaactatgtaccaatgcttgtttaacttg-tcatgcag

upper sequence: GLYMA20G33910.1 (Glycine max), 5'ss of exon 4
lower sequence: AT2G33210.1 (Arabidopsis thaliana), 5'ss of exon 4
ACCGTTGCTAAGAGCATTGAATTCAAGGACAAAGTCAAGAATATCGGTGCCAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctattatatccatactggattatac--tttattaaatcttcagca---------ttggctactttgttattaataatgag-ggtacaatctaatttggcag---------------------
|| ||||| ||||||||||| |||||||| | | | |||||  | |||||||||||||| || ||||||||||| || || |||||||| |||||||||||||||   |    | ||   ||||||| |   ||| ||   | ||    |         || |   | |   || | ||| | |  |||    |   || || ||                      
ACTGTTGCCAAGAGCATTGAGTTCAAGGATAGAATTAAGAACGTTGGTGCCAGTCTTGTGAAACAGGTTGCTAACGCCACAAATGACGTAGCTGGTGATGgtaagtgttccctttcaa--tggattaaaacgttttttctgtttttgctaattgggttgttagtctcctatctactcatattaatcggtgtttttgtatctgacaaaatatatggtatgcgttacag

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|16277971|gb|BI942659.1|BI942659
EST:     CAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATG                         GAACCACTTGTGCTACAATTCTTACTAAAGCAATATTTACGGAAGGATGTA
genomic: CAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctatt ... aatttggcagGAACCACTTGTGCTACAATTCTTACTAAAGCAATATTTACGGAAGGATGTA
EST: gi|209725419|gb|BW658281.1|BW658281
EST:     CAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATG                         GAACCACTTGTGCTACAATTCTTACTAAAGCAATATTTACGGAAGGATGTA
genomic: CAGTCTTGTAAAGCAGGTTGCTAATGCTACTAATGACGTGGCTGGTGATGgtaagctatt ... aatttggcagGAACCACTTGTGCTACAATTCTTACTAAAGCAATATTTACGGAAGGATGTA