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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag

Basic information

species Glycine max
transcript GLYMA20G38810.1
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os01g61860.1 (Oryza sativa), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
  ||||| |||||||| || || || || || ||||||||||||||||||||||| || || || ||  |||||||||| || |||||||||||| | || |||| || | | ||||    || |||  || | |  | ||   |  || |     ||  ||  | |||  |||   |    |  |   | | | |                            
TAAATCACCTGGATTACCTCGGCGTTCAAGTTGCATGGGTTACTGGACCATGGTTTCTATCTATATTCATGAACATGCTACCATGGGAAAGTGgt-aagtcttat-ttttctttatttgaaagagtaatttcggaaaggttt-tatggtcgaagtcgtagaa-aaccatgggtattttggcttgtggtatacatccc---------------------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os05g38950.2 (Oryza sativa), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
| ||||| |||||||| || ||  | || || |||||||||||||||||||||||||| ||||||||    ||  ||||||||||||| |||||| || ||||    | | | | ||   |   ||       | || |||     |    ||| | | ||       ||| |||  ||       |||        ||  |||   ||               
CAAATCACCTGGATTACCTTGGTCTTCAAGTTGCATGGGTTACTGGACCATGGTTCCTATCCATTTTCACCAATGTGCTTCCTTGGGAGAGTGgttagatttttacctttgt-tgttctttcatgtt------tgtttcttgtaggaaaccccatttttaa-------tttataccttagc---taagccattggtggagatataacaac--------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G096470_T01 (Zea mays), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
  |||||||| ||||| || || || || || |||||||| ||||| ||||||||||| || |||||| ||||||||||||| |||||||||||| ||   ||||  | |||   ||||       | ||   | || |||    || |      | ||   |   |  || |    | || || ||      | |   |                        
TAAATCATCTTGATTACCTTGGTGTACAAGTTGCATGGGTCACTGGTCCATGGTTCCTATCTATTTTTATGAACATGCTTCCCTGGGAAAGTGgtgag-ccttattctgtattatttgaa----acatctacattttcctttttgaaatgatgtttctctgcttgcc--ttattttgtgttatttgaaacatttaccttt------------------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G051050_T01 (Zea mays), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagta-ttgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
| ||||| |||||||| || ||| | || || |||||||||||||| ||||||||| | ||||| ||   |||  |||||||||||||||||||| ||  ||||| || | |  ||| | |  | |  |  |||| |||   || ||  ||  | ||   ||||     |||    | |   | | | | | ||| |  | |                       
CAAATCACCTGGATTACCTTGGACTTCAAGTTGCATGGGTTACTGGGCCATGGTTCTTATCCATCTTCACGAATGTGCTTCCTTGGGAAAGTGgttagactttatttttt-tacatt-atttccattaccgagtacttgtagcagaacattctctat---aaatata-gtttagctaatgc-gatggggttacctgc--acc-----------------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaat-------tatttggacttcag----------------------
   |||||||||||||||| |||||||| ||||| |||||||| || |||||||| || ||||| ||  |||| |||||||| |||||||||||||||||||||     |     |  ||  |  | | ||   || |  |     |  |   ||  |    ||   || |||  |   ||| ||    |||  | |||  | | | | |        ||||    |  |                       
TTCATCATCTGGATTATCTTGGAGTGCAAGTGGCTTGGGTTACAGGGCCATGGTTTCTTTCCATCTTCATGAATATGCTTCCATGGGAAAGTGgtcaggttttaaacattggaattaaagctgtcttgtttgaaatagaattgagtaactagtaaattatgctggcaatctgttaaaatttgatcatctttctctttgagatttgggactgagaacccattttctttctaaatgttcgtcttcttgatcacag

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: AT2G39280.1 (Arabidopsis thaliana), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
   ||||||| |||||||| |||||||||||||| || ||||| || |||||||| ||  |||| ||  | || |||||||| ||||||||||||||||||||      ||   ||||        | |||    ||       ||| |||   || |    | |   ||| |  |     ||   |  |  |||||    |||   |                
TTCATCATCTAGATTATCTTGGAGTGCAGGTGGCTTGCGTTACAGGGCCATGGTTTCTTACCATCTTCATTAATATGCTTCCATGGGAAAGTGgtcaggtttt------tagaaattggaattttaaactttac-ttttagaggaaaattgtttatatactcttacgttttctgaatgtcagtctcaaatatcttctttggtataacag---------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv13s0067g03420.t01 (Vitis vinifera), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggtt---ttatgttctatctattgagtag-cgtagcttag------tattgcttcacaaagttgccaatgtcaaatgagcatttg-----tacactattgttcgagcttccttctgatctattgtaattatttggacttcag----------------------------------------
  ||||| ||||||| ||||||||||||||||||||||||||||||||| ||||| || ||||||||| |||| |||||||| |||||||||||||||  |   | |||   ||| ||   | |||  ||   || |       ||||| |   |||  |    || |    |     | ||       ||||| | || |   |  | |       |||| | | ||   | |||                                           
TTAATCACCTGGATTTTCTGGGAGTGCAGGTGGCATGGGTTACTGGACCGTGGTTTCTTTCCATTTTTATGAATATGCTTCCATGGGAAAGTGgtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcag

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: PP1S31_313V6.1 (Physcomitrella patens), 5'ss of exon 9
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcaggttttatgttctatctattgagtagcgtagctta--gtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
| | |||||||||    || ||||||||||| |||||||||| ||| || |||||||| ||||| ||||||||| |  | || ||||| | |||| | ||  | | |   || |  |   |   |||  |||  |  ||  ||     |   | |||| |  | |   |     ||||     |    | ||| |||                             
CAACTCATCTGGAGAGCCTTGGAGTGCAGGTAGCATGGGTTAGTGGCCCTTGGTTCCTTTCCATCTTTGTGAACGTCGTACCATGGGAGACTGgt-atgtcatttttatgatatcatattttttgtaatttaaagctttagtttttgga---ggcaatattgactcgtcgacaatacagaggaggagaatcttgctt-----------------------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: EFJ22778 (Selaginella moellendorffii), 5'ss of exon 8
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcag---gttttatgttctatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
     ||| | || |  || || || ||  |  | ||| | | |||||| |||||||| || || ||||||||| | || ||||||||||||||||||     ||||  | |  |   |    |  ||  | | |  |||   |     ||                                                                            
TTTCGCATTTTGAATCCCTTGGTGTTCAAATATCGTGGATGAGTGGACCCTGGTTCCTATCTATATTTGTGAACGTCCTACCTTGGGAAAGTGgtcagtacaatttaaatgcatttcctc--tttccgctgatgaaaattaacttgtgcag----------------------------------------------------------------------------

upper sequence: GLYMA20G38810.1 (Glycine max), 5'ss of exon 9
lower sequence: EFJ30863 (Selaginella moellendorffii), 5'ss of exon 8
CCAATCATCTGGATTATCTGGGAGTGCAGGTGGCATGGGTTACTGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGgtcag---gttttatgttc-tatctattgagtagcgtagcttagtattgcttcacaaagttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcag
     ||| | || |  || || || ||  |  | ||| | | |||||| |||||||| || || ||||||||| | || ||||||||||||||||||     ||||  | | | || | |   |  ||  | | |  |||   |     ||                                                                            
TTTCGCATTTTGAATCCCTTGGTGTTCAAATATCGTGGATGAGTGGACCCTGGTTCCTATCTATATTTGTGAACGTCCTACCTTGGGAAAGTGgtcagtacaatttaaatgcatttccact---ttccgctgatgaaaattaacttgtgcag----------------------------------------------------------------------------

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|120496536|gb|EH224703.1|EH224703
EST:     TGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAAGTGGTCAG                     
genomic: TGGACCATGGTTCCTGTCCATTTTTGTGAACATGCTTCCTTGGGAAA---GT--Ggtcaggtttt ... tggact