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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa...

Basic information

species Glycine max
transcript GLYMA12G20180.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os09g21770.1 (Oryza sativa), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaag--actcggtg-tattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa
||| ||||| || |||||||| ||||||||||||||||| ||||| || || || || |||||||| ||||||   ||| || |  || ||    |    |  ||  |     ||   | ||  |   |  |||   |  |  | |  |   | ||||     | |      
GTACTGCAAGTGCGAGATGCCGTATAACCCGGATGATCTAATGGTGCAGTGCGAGGGATGCAAGGACTGgtaaatcacttggggacatccttacctttcatactgcatctggctgaccgaagggtatttcatgcccgtc-atttttaggaggaagtatcatagactcagt--

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os08g32620.2 (Oryza sativa), 5'ss of exon 2
-------------------------------GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctt-tactttgttgtgtt--attgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa
                                || ||||| ||||||||||| || |||||||||||||||||||| || || || |  |||||||| ||||||  |      ||  | || | |  | || ||  ||  | | | | | | |  || |   ||   | | | |       | ||| |  ||| |        
TGCTTGTGTTTTCTTTTTCGTTTTTCTGAAGATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat---

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os08g32620.1 (Oryza sativa), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgc-tttactttgttgtgtt--attgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa
 || ||||| ||||||||||| || |||||||||||||||||||| || || || |  |||||||| ||||||  |      ||  | || | |  | || ||  ||  | | | | | | |  || |   ||   | | | |       | ||| |  ||| |        
ATACTGCAAGTGTGAGATGCCATACAACCCGGATGATCTCATGGTGCAGTGCGATGACTGCAAGGACTGgtaattccattaataaaccgcctctgttatgatgcatttcagtctatatagtgaatgtacactggaaaatcatggtaacaataatgaaattggcacccat---

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G091265_T03 (Zea mays), 5'ss of exon 2
-------------------------------GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgttta-tgtatgtggaatttgagaa
                                |||||||| ||||||||||| || ||||||||||| |||||||| || |||||||| |||||||| |||||| |  | ||| |  || |     ||| |    ||| ||  | |   |   ||  |||   || | |  |   |||  | ||  |    | ||||    
TGATCTTATGTGACATTGTTTGTATGTGAAGATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc-

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G091265_T05 (Zea mays), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgttta-tgtatgtggaatttgagaa
 |||||||| ||||||||||| || ||||||||||| |||||||| || |||||||| |||||||| |||||| |  | ||| |  || |     ||| |    ||| ||  | |   |   ||  |||   || | |  |   |||  | ||  |    | ||||    
ATATTGCAAGTGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc-

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G119357_T01 (Zea mays), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaa----gactcggtgtattctgctttactttgttgtgttatt-gtgtttg--gagtttggattttgcttatttag-gtgtttg-tttatgtatgtggaatttgagaa
||||||||||||||||||||| || ||||||||||| |||||||| || || ||||  |||||||| |||||     | |||  ||  ||    ||||| ||    || |||| |  ||||   ||| |   || ||||| |  |  |    || ||||  | | ||||         
GTATTGCAAATGTGAGATGCCATACAACCCGGATGACCTCATGGTGCAGTGCGAAGCTTGCAAGGACTGgtacatttgtctcaatgattttcaatttacatttcactgatatttgcctttgttcagtctattttatgcttctacaaagcaaatgctttaaatctctgga---------

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G091265_T01 (Zea mays), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgttta-tgtatgtggaatttgagaa
          ||||||||||| || ||||||||||| |||||||| || |||||||| |||||||| |||||| |  | ||| |  || |     ||| |    ||| ||  | |   |   ||  |||   || | |  |   |||  | ||  |    | ||||    
----------TGTGAGATGCCGTACAACCCGGATGACCTCATGGTGCAGTGTGAAGGATGCAAGGACTGgtaaaatcctgtgaaaactccacacttttctcccattagtgcatgttttgagaggggtttatctagtaaaatcactgtgaaatggctccacattttgccc-

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G871463_T02 (Zea mays), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgttta---tgtatgtggaatttgagaa
||||||||||||||||||||| || ||||| ||||| |||||||| || || || |  |||||| | |||||  | | | |  | |    |  | |||    | | | ||   || |  ||||      |  |||| | |||  |||  |     | | |  ||| |    |
GTATTGCAAATGTGAGATGCCGTACAACCCCGATGACCTCATGGTGCAGTGCGATGCTTGCAAGCACTGgtac-atttgttacaatgatttgcaatttac-atttcactgatatttgcctttgttccccgtctatt-atgtgactgtacaaagcatgttttaaatctcctga

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G871463_T01 (Zea mays), 5'ss of exon 1
-------------------------------GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgttta---tgtatgtggaatttgagaa
                               ||||||||||||||||||||| || ||||| ||||| |||||||| || || || |  |||||| | |||||  | | | |  | |    |  | |||    | | | ||   || |  ||||      |  |||| | |||  |||  |     | | |  ||| |    |
GTGATGATTGGGTTGTCTATTTTCTCTCAAGGTATTGCAAATGTGAGATGCCGTACAACCCCGATGACCTCATGGTGCAGTGCGATGCTTGCAAGCACTGgtac-atttgttacaatgatttgcaatttac-atttcactgatatttgcctttgttccccgtctatt-atgtgactgtacaaagcatgttttaaatctcctga

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G22140.2 (Arabidopsis thaliana), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtat-tctgctttactttgttgtgttattgtgtttgga--gtttggattttgcttatttaggtgtttgtttatgtatgt-------ggaatt--tgagaa-----------------------
||| ||||||||||| |||||||| || || || ||||||||||| || |||||||| ||||| || ||||||   | | | | | |||  |||| |   ||   |  ||||||||  |  |    ||   |   | | |   | |    ||| ||||         ||||||  ||| ||                       
GTACTGCAAATGTGAAATGCCTTACAATCCAGACGATCTCATGGTGCAGTGTGAAGGCTGCAAAGACTGgtaaatgttgatatttgtcttttttattaacttccttacttgtgtttcaacagaaaagagactatatgtctgtttttaaacttacgtattcttttccaggaattattgataataagcattaattcgctgttgtag

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv10s0116g00160.t01 (Vitis vinifera), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttgg---attttgcttatttaggtgtttgtttatgtatgtggaatttgagaa
|||||||||||| ||||||||||||||||| |||||||| ||||| || || || ||||||||||| ||||||  ||   | | || | ||||  || | | |    ||||  |||   ||||    ||||   || | ||  || || | ||   |  |||||  | |   
GTATTGCAAATGCGAGATGCCTTATAACCCAGATGATCTTATGGTCCAGTGCGAGGGGTGCAAGGACTGgtaac-ctgcttttgttattcttttgttgggtttccggttgttgttgtgttttgtgtcatttcagttttgtatctgattttgtaaaaacatggaaactcaa--

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S307_14V6.1 (Physcomitrella patens), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa--
|||||| |||||||||||||||||||| || |||||| | ||||| ||||||||    ||||| ||||||||||      |    ||  | ||| || ||     |||||||   | || |||  || | |||    |||    |  |   || ||    | |  ||    
GTATTGTAAATGTGAGATGCCTTATAATCCAGATGATTTGATGGTTCAATGTGAGACTTGCAAAGATTGgtaagttctcttcatctcatccttatttagtcagtatattgtga--gcagcttgtcttgtacttcaagaggcaaattgtagagtctgaatcactgaagcctt

upper sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ26805 (Selaginella moellendorffii), 5'ss of exon 3
GTATTGCAAATGTGAGATGCCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcggtgtattctgctttactttgttgtgttattgtgtttggagtttggattttgcttatttaggtgtttgtttatgtatgtggaatttgagaa
||| ||||| || ||||||||||| |||||||||||||| ||||| || ||||| | |||||| || |||||||| || ||   ||||     |       |  ||       |  ||      |  | ||                                      
GTACTGCAAGTGCGAGATGCCTTACAACCCGGATGATCTTATGGTGCAGTGTGAGGAGTGCAAAGACTGgtaagaatcagt---ttctctcaaatccaaaagccttggcagcctccgatgaaaaaaatggcag------------------------------------

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|31464371|gb|CD406399.1|CD406399
EST:     CCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTG                         GTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCAAAGAAACTAGA
genomic: CCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcg ... tttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCAAAGAAACTAGA
EST: gi|20075995|gb|BQ094778.1|BQ094778
EST:     CCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTG                         GTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCAAAGAAACTAGA
genomic: CCTTATAACCCGGATGATCTCATGGTACAATGTGAAGGGTGCAAGGATTGgtaagactcg ... tttcttgtagGTACCATCCTGCTTGCATGGGCATGACTATTGAAGAAGCAAAGAAACTAGA