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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatgtagtatacagttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg...

Basic information

species Glycine max
transcript GLYMA03G35480.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os12g05900.1 (Oryza sativa), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatgtagtatacagttttgctc---ttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg
 |||||  | || || ||||| |||||||  |||   ||  |  | |||||||||||||| ||||||||||| ||||||||||| ||||| |||||||| |||   ||   | ||   ||||||  |   | |||   |  |||  |    |     | || | |||| |   |  |  |  |                    
CTGGGCTGTTAATTTGATGGCTGATGTTGTCCAAGAAGAGCAAATAAACAAGATGAATGCGCGCAATATTGCCATGGTTTTTGCACCAAATATGACTCAGgta---gtgtgttatc--ctattgcgatcatggtactgatatttcattaggtggattctaactgttgtcacacatgtaatgcag-------------------

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os11g05540.1 (Oryza sativa), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatgtagtatacagttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg
 |||||| | || |||||||| |||||||  |||   ||| |  | |||||||||||||| || || ||||| ||||||||||| ||||| |||||||| ||||   |  |   |  |  ||  ||||  ||  ||    |||   | |   |     ||  ||| || | |    |  ||  ||               
GTGGGCAGTTAATTTAATGGCTGATGTTGTCCAAGAAGAACAGATAAACAAGATGAATGCTCGTAACATTGCTATGGTTTTTGCACCAAATATGACTCAGgtaa---tgcactgtccta-ataataaacttatgat----tttaagtgtggtcgatgcttactgtcat-gcacatatgtaatgcag--------------

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: AT3G11490.1 (Arabidopsis thaliana), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagt---aaatcattttctattgtaaatgtagtatacagttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg
|||||| || ||  ||||||| ||||||| | | |||||| |  | |||||||||||||| || || ||||||||||||||||| || ||||||||||| |||||  |    ||| | | ||||  |    | |  | |   |||    | || |    || |    | | | || | | |                      
TTGGGCTATCAATCTAATGGCTGATGTTGTTGAGATGGAACAACTTAACAAGATGAATGCTCGAAACATTGCAATGGTTTTTGCACCTAACATGACTCAGgtaagttttttgaatgaatctctaaagattgtttgatgt---gttcgtattttggt---aaatgacatcagtcaaattgcag---------------------

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g03140.t01 (Vitis vinifera), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttct-------attgtaaatgtagtatacagtt-ttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg
|||||||||||| |||||||| |||||||||||||||||| | |||||||||||||||||||||||| | || ||||| ||||| |||||||||||||||||  |||| | | |||||||       |    |    ||  |  |  || ||||| ||||    |       ||  ||  | |  | | ||  |    || |      
TTGGGCAATAAATTTAATGGCTGATGTTGCTCAAATGGAACATTTGAACAAGATGAATGCACGCAATGTGGCTATGGTGTTTGCACCAAACATGACTCAAgt--gagtgagttattttcttggccaaaccacacgcttataactcctttgttgcttttagtgatatccaagtttcctgtttcctgacaggtggagagtatat------

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S13_243V6.1 (Physcomitrella patens), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatg-tagtatacagttttgctcttagccccaatttttgttattgaattcgt----aaaagtcaacctcatcttattgg------------------------
 |||||  | || || ||||| ||||| |  |||   |||    | ||||||||||| || ||||||||||||||||| |||||||| || |||||||| |||||      ||    ||     |  ||| | | |      |    | |  |      ||||   | || |  || |     || |  |||   | | ||                            
CTGGGCTGTCAATTTGATGGCTGATGTAGTCCAAGACGAAGTAGTCAACAAGATGAACGCTCGCAATATTGCAATGGTCTTTGCTCCTAATATGACTCAGgtaagtcatcttcgacctcccccttggatgctggcacttgaataccatttacgatttttttttcactcttcacctcattttggaacgctaactgaagcctaacacctgtttcgacctctatatctgcag

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S1_829V6.2 (Physcomitrella patens), 5'ss of exon 5
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttcta--ttgtaaatgtagta--tacagttttgctcttagccccaatttttgttattg-aattcgtaaaagtcaacctcatcttattgg-------------------------------------------------------------------
 ||||| || ||||| ||||| ||||| |   |  ||||    || |||||||||||||| ||||||||||||||||| || ||||| || ||||| || ||| |    | |  |    |    | ||  ||||| |  |   || | ||   | | ||   |||||   || | || ||   |  |   | |  |     | |                                                                    
CTGGGCCATTAACTTGATGGCCGATGTCGTGGAGCTGGAGTCTTTCAACAAGATGAATGCTCGCAATATTGCAATGGTATTCGCTCCTAATATGACACAGgtatggagcacttctgcagtggtctctatctgtagaagctgttgtatggcgaatggtcctcttttttcacatggtaactcaagattgcttatcctaaaaggtggttttccgttagcatgttatgtgtcaatgaaggttatccctttactgattcatatttactgccctgcag

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S107_15V6.1 (Physcomitrella patens), 5'ss of exon 5
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgta-agagtaaatcat--------tttctattgtaaatgtagtatacagttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg------------------------------------------------------------------------------------
 ||||| || ||| | ||||| ||||| |   |  ||||    |  |||||||||||||| ||||| ||||| |||||||||||||| |||||||| || ||| |||| |  || |        | | | || | ||  |||| || || |       |    |   || |      ||  |||  |  |      | |||  | |  |                                                                                    
CTGGGCCATCAACCTCATGGCGGATGTGGTGGAGCTGGAGTCTTACAACAAGATGAATGCTCGCAACATTGCTATGGTTTTTGCTCCGAACATGACACAGgtatagagcacctcttcggtggtctctttcttttgaaactagtttagagctaaaactgtgtagcgtgttgtctcccgtgttttctcatgatctttgcacattatttcagcctcgaaggtcgtttgttgttagttggtgttcgatctgttgacgaaggtcatctctttgataatttgagtttcttgccctgcag

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S159_36V6.1 (Physcomitrella patens), 5'ss of exon 5
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatgt-----agtatacagttttgctcttagccccaatttttgttattgaattc-gtaaaagtcaacctcatcttattgg------------------------------------------------------------------------------------
 |||||  | ||| | ||||| |||||||   |    ||     | ||||| ||||||||||| |||||||||||||| ||||| || |||||||| || ||| | | |  ||  |  | |||||     |     |   |       |  ||||| ||  | || | |  |||   | | |||     ||  ||| ||  | | |                                                                                    
CTGGGCTGTCAACCTGATGGCCGATGTTGTCGAGCACGAGGTTCTCAACAAAATGAATGCACGAAATATTGCAATGGTGTTTGCACCTAACATGACGCAGgtatgtg-atgtcgctg-caattgtgcgcctccccaaacttgtgacacttttctta-ccagacttgtagagattcggtcctgtagttagcagactc-tccgactagatttctacgtgatctaaggaagtatttgtgttaagcttgttatatgaagtgaataacatattaactatgattcattacttgcag

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S256_73V6.1 (Physcomitrella patens), 5'ss of exon 6
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagag----taaatcattt--------------tctattgtaaatgtagtatac-----agttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg--------------------------
||||||  | ||  | ||||| ||||| | ||||  |||||  || ||||||||||| || | ||| ||||||||||| |||||||| |||||||| || ||| |      | || |  |               | |||| | ||  || | | |     |   | |  ||| ||| ||  ||| |  |   || |   |    || || | || |  ||                            
TTGGGCTGTCAATCTGATGGCTGATGTAGTTCAAGAGGAAACGTTCAACAAGATGAACGCTCACAACATTGCAATGGTATTTGCTCCTAACATGACCCAGgtacgtcattctgaacccctcctcagatgctgggctttattctgaacataatctgcccaaaaaaatcgtccttcgcctca--tttcgaaacaaaaattccag--ttcgacattatttatttatttcttctccgacctttgtatttgcag

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ22564 (Selaginella moellendorffii), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatgtagtatacagttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg
 |||||  | ||  | ||||| || || || ||   |||    |  |||||||||||  | || || || ||||||||||||||||| ||||||||||| ||| |      || | ||  |||       | || |   |||||  | |  |      | |||  | |||   ||  |                      
CTGGGCGCTGAATCTCATGGCCGACGTCGCCCAGGAGGAGGCGTCAAACAAGATGAACTCCCGGAACATCGCAATGGTTTTTGCTCCCAACATGACTCAGgtacgt-----tcctctttcatttggtgcttggt-ttttgttttcttttctgtaatg-tatttccttttgctgtcccag---------------------

upper sequence: GLYMA03G35480.1 (Glycine max), 5'ss of exon 4
lower sequence: EFJ12967 (Selaginella moellendorffii), 5'ss of exon 4
TTGGGCAATAAACTTAATGGCAGATGTTGCTCAAATGGAAAACTTGAACAAGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaaatcattttctattgtaaatgtagtatacagttttgctcttagccccaatttttgttattgaattcgtaaaagtcaacctcatcttattgg
 |||||  | ||  | ||||| || || || ||   |||    |  |||||||||||  | || || || ||||||||||||||||| ||||||||||| ||| |      || | ||  ||| |   | | |  |   |||||| | |  |      | |||  | |||   ||  |                      
CTGGGCGCTGAATCTCATGGCCGACGTCGCCCAGGAGGAGGCGTCAAACAAGATGAACTCCCGGAACATCGCAATGGTTTTTGCTCCCAACATGACTCAGgtacgt-----tcctctttcatt-tggttcttggtttttgttttgttttctgtaatg-tatttccttttgctgtcccag---------------------

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|22521721|gb|BU080532.1|BU080532
EST:     AGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAA                         ATGGCAGATCCTTTGACTGCTCTGATGTATGCAGTACAAGTCATGAATTTT
genomic: AGATGAATGCACGCAATATTGCAATGGTTTTTGCTCCAAACATGACTCAAgtaagagtaa ... tctcctacagATGGCAGATCCTTTGACTGCTCTGATGTATGCAGTACAAGTCATGAATTTT