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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcag

Basic information

species Glycine max
transcript GLYMA13G42800.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 3
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatcatttgg-------tcagtaatgttg-caccaacatcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcag-------
 |  |    ||    || ||  | |||||    || ||  | ||||  ||||||||||| ||||||||||| || || ||||||||||| ||||| ||||||      | ||         | | | ||  || | ||      | |||  |||||       |||| | |     |     | ||| | |        
-AGCGCCAGTCGG--AGTGAACTTGAGAGACAAGATTACCCGATTGCCAGGCATCCTGAATTCCGTTACAAGACTGAATTTCAGAGTCATGAACCTGAGgtatgtgaaacttaaaatggttttaattatagtgtctcccctggtccatgaatcagagtgacatatatatctgccacagttggactgtataattttgata

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 5'ss of exon 3
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcag
     ||  |  || |  ||    ||||  || || |||||  || | ||||||||||| || || |||||||| |||||||| || || ||||||||||||      |   |   |    || |     ||   ||| |   |        | ||    ||   ||| |  ||||    | ||
---AATGCCTGTAGAAAAGAGGCTGAGAAAGTTGATTATTCCGTTAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCATGAACCAGAGgtatattgtacaagactaac--tgcttagtgaagtacctgtaatttctgttgtttaac---taatttgtcttgtcatgcgattag

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G069631_T02 (Zea mays), 5'ss of exon 3
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgta-atcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaat--atttataatgtatgat-cattgtttcag-----------
     ||  |   |  | ||  | ||||||   || |||  | ||  |||||||||||||||||||||||| || || ||||||||||| ||||| ||||||  |     ||   |  |  ||    |   |  | |   | | |||  || ||||||  | || |  ||  |||  || ||   ||            
---AATGCTTGTCGAGGAGAACTTGAGAGGCAAGAATATCTTGTTTCTAGGCATCCTGAGTTCCGTTACAAGACCGAATTTCAGAGTCATGAACCTGAGgtacgtgggtcttaaattggcgatagaccgatagtaacaatttgttcatgagtgtcaattgacttcttgtgactgaggcactgagccatatctagcttgg

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G164185_T02 (Zea mays), 5'ss of exon 3
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgta-atcatcatttggtcagtaatgttgcaccaac-atcctatgggtcagaagagtcaatatttataatg-tatgatcattgtttcag
     ||  |  || |  |||   ||||  |  ||  |||||||  | ||||||||||| || || |||||||| |||||||| || ||||||||||||||| ||  |||        || | || | |  |    || | ||  | |   ||   | |   || | || | |  | || |  ||||
---CATGCTTGTAGAAAAGATGCTGAGAAAGCTGATCATTCTATCAGCAGGCATCCTGAATTTCGCTACAAAACTGAGTTTCAAAGCCACGAACCAGAGgtatattctcacaaacattgttaagtggtattatttgtcttctgaattacttgaa--atttgataaagtgatgttgttatggaatcag

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G142334_T02 (Zea mays), 5'ss of exon 3
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgta-atcatcatttggtcagtaatgttgcaccaac-atcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcag--
     ||  || || |  |||   ||||  |  || ||||||||  | |||||||||||||| || |||||||| |||||||| || || || ||||||||| ||  ||    |    ||   || | |  |    || ||||  | |   ||   ||| || | || ||    | ||| ||  |   
---CATGCCTCTAGAAAAGATGCTGAGAAAGCTGATTATTCTATCAGCAGGCATCCTGAGTTTCGCTACAAAACTGAGTTTCAAAGCCATGAGCCAGAGgtatattctcgcaagcattgtttagtggtattatttgtcttatgaattacttga---aat-ttgacaaagtgatgttattattgaatag

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 5
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatcatttggtcagtaatgttgcaccaacatcctatgggtcagaagagtcaata--tttataatgtatgatcattgttt--cag
    ||||| | || || ||  | ||    |  || ||| | | ||  |||||||| ||||| ||||| |||||||||||||||||||| || || |||||| |    ||||  || ||  | || |     || |   | ||  | |    | |      || | |||    ||| ||||||  |||
AGCAGTGGAACCAGAAGAGAGCTTGAAGAAGCTGATTAT-CCACTG--AGGCATCCAGAGTTTCGTTATAAAACAGAGTTTCAGAGTCATGACCCTGAGgtatttg--atttactctgttttctt-cttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtttaccag

upper sequence: GLYMA13G42800.1 (Glycine max), 5'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 3
CATGGTGGATCAAGTAGGGATTTGGAGAGGGTGGACTATTCTATTGGTAGGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgta-atcatcatttggtcagtaatgttgcaccaac-----atcctatgggtcagaagagtcaatatttataatgtatgatcattgtttcag
||||| || || || | |||| | |||  |  ||| ||  |  ||   |||||||||||||| || || |||||||| ||||||||||| |||||||||||| || |  | ||  |||  |   || |||  ||     ||  | |   |      | ||||||    |  | |   |||  ||||||||
CATGGAGGGTCCAGGAAGGATCTTGAGCAGACGGATTACCCAGTT---AGGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaaactta-tcaccag-atttcacttacgagtaattgtgttccttgagctactcaataagcttgcttttcaatc--tgtttcag

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|193625400|gb|FK575218.1|FK575218
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|14258469|gb|BG881377.1|BG881377
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|15286432|gb|BI470323.1|BI470323
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|193333352|gb|FK300385.1|FK300385
EST:     GGCATCCTGAGCTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTT
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTT
EST: gi|208313579|gb|GE116513.1|GE116513
EST:     GGCATCCTGAGCTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAAG
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCA-G
EST: gi|209700206|gb|BW656297.1|BW656297
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGGAAATTGAAGAGAAAATCAACAAAATCAGA
EST: gi|208243851|gb|GE040748.1|GE040748
EST:     GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAG                         TTTGACTATCTTAAGAGTTTGG
genomic: GGCATCCTGAGTTCCGTTACAAAACAGAGTTTCAGAGTCACGAACCAGAGgtaatcatca ... attgtttcagTTTGACTATCTTAAGAGTTTGG