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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatcaactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag

Basic information

species Arabidopsis thaliana
transcript AT3G16950.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatcaactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagc-tagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| |||||||| ||||| || || ||||| ||||||||||| || ||||| ||| |||| |||||  | ||||||||||||||||| || ||||| ||||||            | || | ||  | || || |    || | || |  |||   |||  ||| |||  | ||   |||||||         ||| ||  || || |     |||  |||                    
TGTAAACAGAGGTTGTGTCCCATCAAAAGCACTTCTTGCTGTCAGCGGTCGCATGAGGGAGCTTCATGATGAACATCACATGAAGTCATTGGGTCTACAGgta------------ttttgtttggatgaa-ttactgcattagcctctt-tgtttgatg--tgttgaaacttgaaaatagttca---------cataacaattgacaaatgagtggacttttaaa----------------

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g23610.1 (Oryza sativa), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaa-atatcaactc-atgttctctgtttaaagttgcaagctttg-----tctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| |||||||| ||||| || || || || ||||||||||| || ||||| ||| ||||||||||  | ||||| |||||||| || || ||||| ||||| | |||| ||    | | | |||||  |    |  | |   ||       ||  || ||  ||  | | |    |  |   || ||    ||||| |                                                
TGTGAACAGAGGTTGTGTTCCGTCGAAGGCACTTCTTGCTGTCAGCGGTCGGATGAGGGAACTTCAAGATGAACACCACATGAAATCGTTGGGTCTACAGgtgatatattaatcagaagatttctgtggattagttgatgtactgaaaatagttcagtctgtcatcatggcaatttagtgtaatatttagaaaattaata-----------------------------------------------

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G073774_T01 (Zea mays), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatcaactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| |||||||| ||||| || || ||||| ||||||||||| || |||||||||||||| |||||  | |||||||| |||||||| || ||||| |||||||           |||  || | | ||    || ||     |  ||| | ||       |||   | || | |||||| ||  | | ||  |  | ||    |||     | || |                      
TGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAATGCGGGAGCTTCATGATGAACATCATATGAAGTCTTTGGGTCTACAGgtaa-----------tgtggtcagatgaattcggcgagagcaattcttgatttg------ctgtttcaaattg-gctagtgcaaaactgacaaaa-agctacagctaggagcttgtctg---------------------

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G145595_T02 (Zea mays), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatcaactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| |||||||| ||||| || || || ||||| |||||||| |||||| | ||||| ||||||||  | |||||||||||||| ||  | || || ||||| |   ||   | |||    ||  |    ||||   |  || |  |   |    |||| ||    ||   | ||  |  |||      | |||| |                                           
TGTCAACAGAGGCTGTGTTCCGTCAAAGGCTCTCCTTGCTGTAAGTGGTAGGATGCGAGAACTTCAAGATGAACATCACATGAAATCACTGGGCCTACAGgtgatattctcataatggaa-ctactggttgttgtgtgtgtttttatgtatcaacaatgatttgcaaaatgctaggaacctcaatgtacaatcatgatgaa---------------------------------------

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA15G15310.1 (Glycine max), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatat-caactcatgttctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| |||||||||||||| |||||||| |||||| | ||||| |||||||||||||| || || | ||| || |||||| |||||||  | ||| | ||||||||  |         |    |   ||    ||  ||  || |  | | ||| |      |  |  ||||  ||     |      || | |  ||   ||    | |||||                            
TGTGAACAGAGGATGTGTTCCTTCTAAGGCTCTTTTGGCTGTGAGTGGTCGAATGCGAGAGCTGCGGAATGATCATCACTTGAAGTCGCTGGGTTTGCAGgtaaaagtgttgtgtgagaatgcaaattgggtttagaactttagaatatagtgcgct----tcatgaaagagagattcgttgtgcttatgattagttggtttgtgttgtcttag---------------------------

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G37050.2 (Glycine max), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgt--aaatatcaactcatgt-----tctctgtttaaagttgcaagctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| ||| |||| ||||| ||||| ||||||||| | || || |||||||| ||||| |||||  ||| ||| |||||| |||||||||||||  | |||||   | | |      ||||     | | |||    |  | | |  | ||  |||  | | |||||   || | | ||      |   || | ||      |                                             
TGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTATGCGAGAACTAAAGAGCGATCATCACTTGAAGTCCTTTGGCTTACAGgttagagtgttgcactatgtgggagtatttgtaatgaaattcgaa-tatgaatttaat-taaaatgaacgtcgtatataatataacgccatgtatagtaagt---------------------------------------------

upper sequence: AT3G16950.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA17G03560.1 (Glycine max), 5'ss of exon 2
TGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatcaactcatgttctctgtttaaagttgcaa---gctttgtctttggtgtgaaatggttgtagaagatcgagctagttcaggaattactcattacctttcactatcttatggtttttggttttcctttgggaaacag
||| |||||||| ||||| ||||| ||||||||| | || || |||||||| ||||| |||||   || ||| |||||| |||||||||||||  | ||||| |  |     |     | | ||   | | ||| ||     || |  |||  | | |||||   || | | ||      |   || | ||      ||                                            
TGTGAACAGAGGCTGTGTTCCTTCCAAAGCTCTTTTAGCCGTGAGTGGTCGTATGCGAGAACTAAGGAGCGATCATCACTTGAAGTCCTTTGGCTTACAGgttagaagagtgtttgactgtgtgggaatatttgtaatgaaattagaatttaat-taaaatgaacgttgcatataacataacgacatgtatagtaagttga------------------------------------------

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|47831000|gb|CK120684.1|CK120684
EST:     GAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAG                         GTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAAT
genomic: GAATGCGGGAACTTCAGAACGAACATCACATGAAGTCCTTTGGTCTCCAGgtaaatatca ... tgggaaacagGTTTCAGCTGCTGGATATGATCGTCAGGGTGTGGCAGATCATGCTAATAAT