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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGATTGCTAAAGCTCGAAAATCAGgttttctgttacaactcatgtaggactaaccttttgcttttctcattgtatggacattatcctgttagaaatcaatctcctatccgaacatccactagtgcaataacatatgtgtagaaaagtacctttcaaatttttacttagtatttggcttaataaatatgaaaagtttttttgttatgtatttcag

Basic information

species Arabidopsis thaliana
transcript AT5G12200.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 5'ss of exon 9
AGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGATTGCTAAAGCTCGAAAATCAGgttttctg--ttacaactcatgtaggactaaccttttgcttttctcattgtatggacattatcctgttagaaatcaatctcctatccgaacatccactagtgcaataacatatgtgtagaaaagtacctttcaaatttttacttagtatttggcttaataaatatgaaaagtttttttgttatgtatttcag
 | |||||||| || ||    ||| | || || ||  | ||||||||||||||||||||  ||||||||||||| |||||||| || |||  || |  |||| | |    ||||   |||  |   |  ||  |  |  |     ||  | |  | ||   |  |  ||  ||| ||| |  |    |||       | ||                                                                                           
CGGGCAATTCGATTAGCCAAGTTTGTCAATACACCATTGTATGTTGTTCATGTGATGAGCATTGATGCAATGGATGAGATTGCCAAGGCTAAAAGAGAAGgtctgccaccttacctttcagttgcaatcaaattactcatgcatgcaa-gca-agccagagtttttatatgaatgaatatgttcctagaaagatacattgta------------------------------------------------------------------------------------------

upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G020002_T03 (Zea mays), 5'ss of exon 6
AGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGATTGCTAAAGCTCGAAAATCAGgttttctgttacaactcatgtaggactaaccttttgcttttctcattgtatggacattatcctgttagaaatcaatctcctatccgaacatccactagtgcaataacatatgtgtagaaaagtacctttcaaatttttacttagtatttggcttaataaatatgaaaagtttttttgttatgtatttcag
 | ||||| ||||| |||   || || || ||||| || ||||||||||||||||||||  | || |||||||| |||||||| || |||  || |  ||||   ||       |  || |    |||   ||| | |    || |  | ||||   |   |    ||     | ||| | ||  ||    | |||  || ||| |  |                                                                                 
CGGGCAATCCGTTTAGCTAAGTTCATCAATACGCCACTGTATGTTGTTCATGTGATGAGCATCGACGCAATGGATGAGATTGCCAAGGCTAAAAGAGAAGgtcagct----tggcatattttcttctagaatttagttggattc-tactttggatcctgaaccaa-agttcctactcttcaatgtga----ctactgttgaaatgaactc--------------------------------------------------------------------------------

upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA15G06100.1 (Glycine max), 5'ss of exon 6
AGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGATTGCTAAAGCTCGAAAATCAGgttttctgttacaactcatgtaggactaaccttttgcttttctcattgtatggacattatcctgttagaaatcaatctcctatccgaacatccactagtgcaataacatatgtgtagaaaagtacctttcaaatttttacttagtatttggcttaataaatatgaaaagtttttttgttatgtatttcag
 | || |||||||| |||  |||| | ||||| ||| | ||||| |||||||| |||||  ||||||||||||| || |||||||| || || ||||||||||         || |          ||| | |||    || | |||  ||   |||||   ||||  | |  ||      || |   |||  |  || | ||  | | |  ||||  | |                                                                     
CGTGCTATTCGTTTAGCTGATTTTGTGAACACTCCTTTATATGTGGTTCATGTAATGAGCATTGATGCAATGGAAGAAATTGCTAAGGCCCGGAAATCAGgtt---------aattt---------taatcctttagagtttttatta-attttcattaatgtgttccacagtaacagtgcatgcattcattta--agagaaagtagacagttgtaacaca---------------------------------------------------------------------

upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA02G44690.1 (Glycine max), 5'ss of exon 6
AGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGATTGCTAAAGCTCGAAAATCAGgttttctgttacaactcatgtaggactaaccttttgcttttctcattgtatggacattatcctgttagaaatcaatctcctatccgaacatccactagtgcaataacatatgtgtagaaaagtacctttcaaatttttacttagtatttggcttaataaatatgaaaagtttttttgttatgtatttcag
 | || |||||||| ||   |||| | || || ||| | ||||| |||||||| |||||  ||||||||||||| || ||||| ||||| || |||||||||| | |  ||   ||  |||  | || |  ||||  |      | ||||||  ||||          || |  ||    |||   | |||  |  | |  ||   | | |                                                                               
CGTGCCATTCGTTTAGCAGATTTTGTGAATACTCCTTTATATGTGGTTCATGTAATGAGCATTGATGCAATGGAAGAAATTGCAAAAGCCCGGAAATCAGgttctttaatatttctagtgttagtctcaatttttatt------aatgtatg--cattcattaagagaaagtacatgatttat---agcatataaaattagaaatcctttt-------------------------------------------------------------------------------

upper sequence: AT5G12200.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0009g02790.t01 (Vitis vinifera), 5'ss of exon 6
AGAGCAATTCGTTTGGCTCGTTTTATTAACACGCCTCTCTATGTTGTTCATGTGATGAGTGTTGATGCAATGGACGAGATTGCTAAAGCTCGAAAATCAGgttttctgttacaactcatgtaggactaaccttttgcttttctcattgtatggacattatcctgttagaaatcaatctcctatccgaacatccactagtgcaataacatatgtgtagaaaagtacctttcaaatttttacttagtatttggcttaataaatatgaaaagtttttttgttatgtatttcag
||||| ||||| |||||  ||||| ||||||||||||||||||| ||||||||||||||  ||||||| ||||| || || |||||||||||||||||||||||| |     ||||| | ||    | || ||  |  |||    |||| |  |  |||  |    |   | |||  ||  ||   |   |  | |  |   ||||  | |                                                                               
AGAGCTATTCGGTTGGCCAGTTTTGTTAACACGCCTCTCTATGTAGTTCATGTGATGAGCATTGATGCGATGGAAGAAATAGCTAAAGCTCGAAAATCAGgtttttt----taactcttata---tttacattacgtgttt---gttgtgttaaatttacaccaccatggagcaaaatctcatgttattcttaatt--ttatataagttcta------------------------------------------------------------------------------

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|125089233|gb|EL147678.1|EL147678
EST:     GACGAGATTCGCTAAAGCTCGAAAATCAG                         GACAGAAGGTTATTGGAGAGCCTGTTGTGTCTGGATTAATCCTTGA
genomic: GACGAGATT-GCTAAAGCTCGAAAATCAGgttttctgtt ... tgtatttcagGACAGAAGGTTATTGGAGAGCCTGTTGTGTCTGGATTAATCCTTGA