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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttttaacttaagggtattgttttgtattgattcattggatgtaactttactagctttgtttcag

Basic information

species Glycine max
transcript GLYMA05G03270.1
intron # 19
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os07g47530.2 (Oryza sativa), 5'ss of exon 23
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttttaa---cttaagggtattgtttt--gtattgat--tcattggatgtaacttt---actagctttgtttcag-------------------
|||||||| ||||||||||||||||| |||||||| || || || || || |||||| | |||||||| || ||||| |||||||| || |    ||   |||| ||  ||| ||||  | ||  ||  || || |    | ||||   | || |  ||||||||                   
TGGTTTGGCGAGGGTGAGAAATATGTCAAAGCTGTGTTTTCACTTGCAAGCAAAATTGCTCCTAGTGTCATTTTTGTGGATGAGgtcagtcaacaaaattcttatggtcattttttttggaatgaattgtcgtttggcccaccttttatattaccaatgtttcagtttggaccaccatatacct

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os11g43970.1 (Oryza sativa), 5'ss of exon 23
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttttaacttaagggtattgttttgtattgattcattggatgtaactttactagctttgtttcag---------------------
|||||||| || || ||||||||||| ||||||||||||||  | || ||||||||  | || || ||||||||  ||||||||||| ||  || | | |  |||| | ||||| |  | |||  |  ||| ||  |   |  | | || | ||                      
TGGTTTGGCGAAGGAGAGAAATATGTAAAAGCTGTTTTCTCATTAGCAAGTAAAATAGCTCCAAGCGTTATATTCATTGATGAGgtatgc--ttgagcatgtgggt-tggttttattgtcattagt--gatttatttggtcacggtatgatccatacaaaatgcaacatttggcag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: LOC_Os03g22420.1 (Oryza sativa), 5'ss of exon 23
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagcc--ttttaact---taagggtattgttttgtattgattcattg-gatgtaactttactagctttgtttcag-----------------
|||||||| || || ||||| | |||||||||||| || || ||||| || |||||| | || |||||||| || || |||||||||||    || ||| |    ||    |  |  || | |  ||||  || |||||    || |||| ||   |||                   
TGGTTTGGTGAAGGAGAGAAGTTTGTGAAAGCTGTATTTTCACTGGCAAGCAAAATTGCTCCAAGTGTTATTTTCGTGGATGAGgtaagtaaattgtaattgatcaatcacaacgcctt-tctgaattccctgtgatgtttgctttctagtttatcttcttcatcttgtgttgtatag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G157621_T02 (Zea mays), 5'ss of exon 22
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttttaacttaagggtattg-ttttgtattgat----tcattggatgtaactt--tactagctttgtttcag---------
|||||||| ||||| || |||||||||||||||||||| || || || || |||||||| ||||||||||| || || |||||||| ||   |||   | | ||  | || |  | |    ||    | ||  | |||| |||  |  | | ||||| ||           
TGGTTTGGAGAGGGAGAAAAATATGTGAAAGCTGTTTTTTCACTTGCAAGCAAAATTTCTCCTAGTGTTATTTTCGTGGATGAGgttagtgattttcttaacggtcactgatgatatgcctatgacataataagttgtagcttactcattgatttgtgtcctgtatattag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G354532_T01 (Zea mays), 5'ss of exon 2
---------TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagc---cttttaacttaagggtattgttttgtattgattcattggatgt-aactttactagctttgtttcag---
         |||||||| || || ||||| ||||| || ||||||||||| || || ||||||||  |||| |||||||||||| ||||||||||| ||   |    || || |   || |      ||  |   || |  ||   |||||   |   |   |||| |   
GCTAACCAGTGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAGgtatgcaagcacacaagtttactttagtaaccactaccggcacagtatataccaacttctttttttgactttctggag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G126453_T02 (Zea mays), 5'ss of exon 8
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagc---cttttaacttaagggtattgttttgtattgattcattggatgtaactttactagctttgtttcag---
|||||||| || || ||||| ||||| || ||||||||||| || || ||||||||  |||| |||||||||||| ||||||||||| ||   |    || || |   || |      ||  |   || |  ||   |  ||  |   |   |||| |   
TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAGgtatgcaagcacacaagtttactttagtaaccactaccggcacagtatataccaactttttttttgactttctgcag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G435582_T01 (Zea mays), 5'ss of exon 3
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagc---cttttaacttaagggtattgttttgtattgattcattggatgt-aactttactagctttg--tttcag---
|||||||| || || ||||| ||||| || | ||||||||| || || ||||||||  |||| |||||||||||| ||||||||||| ||   |    || || |   || |  |   ||  |   || |  ||   |||||   |   ||||  |||| |   
TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGTTGTTTTCTCACTAGCAAGTAAAATAGCACCCAGTGTTATATTTATTGATGAGgtatgcaagcacacaagtttactttagtaatcactaccggcacagtatataccaacttctttttttttgactttctgcag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G052403_T01 (Zea mays), 5'ss of exon 14
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttttaac--ttaagggtattgttttgtattgattcattggatgt-aactttactagctttgtttcag
|||||||| || || ||||| ||||| || ||||||||||| || || ||||||||  | || |||||||||||| | ||||||||| ||      ||   | |   || |      | ||| | || || |    |||| |  | |  ||  | |||
TGGTTTGGTGAAGGGGAGAAGTATGTAAAGGCTGTTTTCTCACTAGCAAGTAAAATAGCCCCCAGTGTTATATTTATCGATGAGgtatgcaagcagacaggttacattagtaaacactgttggtacagtgtacaccaactgtctttgactttctgcag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: GRMZM2G042074_T02 (Zea mays), 5'ss of exon 18
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagcc---------ttttaacttaagggta--ttgttttgtattgattcattggatgtaactttactagctttgtttcag-------------------------------------------------------------
||| |||| || || || ||||  |||||||||||||| || ||||| ||||||||| | || ||||| || ||||| || ||||||||           || | |   | |   |  || | ||   |||||   |   | |  ||   | || || |  ||                                                                
TGGCTTGGTGAAGGAGAAAAATTCGTGAAAGCTGTTTTTTCACTGGCAAGTAAAATTGCTCCAAGTGTAATTTTTGTGGACGAGgtaagttatagtagtgttgtgatccatgaacaatttctatttatttgatctgtaccaggacaccacaatatctgtagtttgtcaatcccgtattaatgcatacttttctgctcatttatcctgctcttgtttttattttttag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: AT4G24860.1 (Arabidopsis thaliana), 5'ss of exon 22
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttttaacttaa-----gggtattgttttgta-ttgattcattgg--atgtaactttactagctttgtttcag--
|||||||| ||||||||||| ||||| |||||||| || ||| |||| |||||||| || ||||| ||||| ||||| || |||||||   || |   | |      | | |||   ||||| |     || ||    | | ||  |  ||    |||||     
TGGTTTGGTGAGGGTGAGAAGTATGTCAAAGCTGTCTTTTCTTTGGCCAGTAAAATGTCCCCTAGCGTTATCTTTGTGGACGAGgtaatttttctggttaattccttgcgaatttgcttgtaatcagagcactgacagtcttacaatgttattactgttttgtag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: AT1G62130.1 (Arabidopsis thaliana), 5'ss of exon 22
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagcctt-----ttaacttaagggta----ttgttttgtattgattcattggatgta--actttacta-gctttgtttcag
|||||| | ||||||||||||||||| |||||||| || ||  |||| ||||||||||| || ||  |||| ||| | || |||||||  | |     | || |   |||      ||| ||    |     |||||  |||   ||  || |   || | ||  ||
TGGTTTAGTGAGGGTGAGAAATATGTCAAAGCTGTCTTTTCGTTGGCTAGTAAAATTTCCCCAAGCATTATCTTTTTGGACGAGgtaattcctcatggtcaattcgtgggcgaatcttgcttgtagtcagagcattgactgtcttacaatattttactgtcttgtag

upper sequence: GLYMA05G03270.1 (Glycine max), 5'ss of exon 19
lower sequence: PP1S3_184V6.1 (Physcomitrella patens), 5'ss of exon 19
TGGTTTGGGGAGGGTGAGAAATATGTGAAAGCTGTTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagcctttt--aacttaagggtattgttttgtattgattcattggatgtaactttactagctttg--tttcag-------------------------
||||| || || | |||||| ||||||||||| |||||  |  |||| || || |||||||||||||| || ||| ||||||||||| | || |    |  |   || |||  | || ||| ||  ||   |||    |    |   ||||  |||||                          
TGGTTCGGAGAAGCTGAGAAGTATGTGAAAGCAGTTTTTACATTGGCTAGCAAGATTTCACCTAGTGTAATTTTTATTGATGAGgtatggctgtgtagaagtcgtggaattcgtatgcatttatgaatcatatgagtttgccgtgtatttgaatttcattggccttcctaaccaagtcccaagt

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|17022161|gb|BM093195.1|BM093195
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
EST: gi|27425980|gb|CA937500.1|CA937500
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
EST: gi|26268110|gb|CA819173.1|CA819173
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
EST: gi|10844689|gb|BF067915.1|BF067915
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTTCGTAGGGAAAACCCAGGAGAGCATGAGGCCAT
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGT-CGTAGGGAAAACCCAGGAGAGCATGAGGCCAT
EST: gi|207835662|gb|GD805659.1|GD805659
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
EST: gi|192328312|gb|FK020023.1|FK020023
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
EST: gi|26048337|gb|CA784840.1|CA784840
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAGCATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCATG
EST: gi|208092591|gb|GD885568.1|GD885568
EST:     TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAG                         GTTGACAGACAATGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCA
genomic: TTTTCTCTCTGGCGAGTAAAATTTCACCTAGTGTTATATTTGTTGATGAGgtaagccttt ... tttgtttcagGTTGACAG-CA-TGTTGGGTCGTAGGGAAAACCCAGGAGAGCATGAGGCCA