Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatcctcatgctgactgaatataaatttgttacacaaaccagctgttttcttgtcacttgctatagttcattaatttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG

Basic information

species Glycine max
transcript GLYMA02G01920.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os03g21950.1 (Oryza sativa), 3'ss of exon 11
gtaagatcctcatgctgactgaatataaatttgttacacaaaccagctgttttcttgtcacttgctatagttcattaatttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG
                                              |||| ||    |   ||| |  ||||  | ||||         ||| ||      |||  | ||| | ||  |  | ||      ||||| || ||||||||||||||||||||||| ||||| ||||| ||||| |||
----------------------------------------gtaagactgtattgcatttgattgtttcagtttctcaattagc--actgtgctatcaagcattggttttaa-ctacttccatctta-----cagGGAAAAGTTAACCCTACCCAGTGTGAGGCCTTGACCATGGTTTGTGCTCAG

upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G010823_T01 (Zea mays), 3'ss of exon 11
gtaagatcctcatgctgactgaatataaatttgttacacaaaccagctgttttcttgtcacttgctatagttcattaat-ttatttgtcttgcaattggaatttgactctaa-gccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG
                                       || |   ||||| |  | |||  || ||| |||  |  || ||  |   |     |  | | | |||  ||   |   ||||| | | || ||||||||||| ||||| || ||||||||||||||| |||||||||| ||||| |||
-------------------------------------gtaagcagactgttattatatca--tgatatggtttttgtatgttgatcaacggaagacagcattgtgaagcttctgtttcaact-tgtact-tttcagGGGAAAGTTAATCCAACCCAGTGTGAGGCTCTGACAATGGTTTGTGCACAG

upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G47510.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagatcctcatgctgactgaatataaatttgttacacaaaccagctgttttcttgtcacttgctatagttcattaatttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG
                                                || |   ||  |  | |  | | || |   |   ||| | || || | |   ||||| || ||   |    | |  ||| | |||||||||||| || ||||| ||||||||||| ||||| ||||| ||||| |||
------------------------------------------------gtatgaatgcaatcttcctttgctcttctgtccttttctttttcactagt--tttgattcaaatgaatttttat-ctctttctcagGGGAAGGTAAATCCTACACAGTGTGAGGCCTTGACTATGGTTTGTGCACAG

upper sequence: GLYMA02G01920.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv07s0005g00880.t01 (Vitis vinifera), 3'ss of exon 12
gtaagatcctcatgctgactgaatataaatttgttacacaaaccagctgttttcttgtcacttgctatagttcattaatttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG
|||| ||||| ||         |||||  ||| | |||  ||  || || | | |  ||||||||      |   ||    ||||    | || ||   |||   |  | |||        | |||| |||||||| |||||||||||||| |||||||||||| | |||||||| ||||| |||
gtaaaatcctgatctctttcccatatatttttatgacagtaaaaagatgatattt--tcacttgc----acttgcta---catttaggattcattt---attcatcctttagct-------ttttctatttcagGGAAAGGTTAACCCTACTCAGTGTGAGGCTCTCACAATGGTCTGTGCTCAG

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|192310922|gb|FG998898.1|FG998898
EST:     GAACCAGGGAGCAGTATCATGCCT                         GGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG
genomic: GAACCAGGGAGCAGTATCATGCCTgtaagatcct ... tctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatttgtcttgcaattggaatttgactctaagccacaactgtattctgtttcagGGGAAGGTTAACCCTACCCAGTGTGAGGCTTTGACAATGGTGTGTGCCCAG
                    atttgac  putative branch site (score: 4)
                                            ttctgtttc  putative PPT
                   aatttga  TA-rich tract