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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATGGCCAACTCTGCAGAGAAAATCAGACTTGCTGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaatatatattcttttggctatcttttctgtacattgctcaatttaagataacacaaagtgaaaagtcatagatgtaaatatatgatattggat...

Basic information

species Oryza sativa
transcript LOC_Os12g10784.3
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os12g10784.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G168510_T01 (Zea mays), 5'ss of exon 1
---------------GTTATGGCCAACTCTGCAGAGAAAATCAGACTTGCTGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaatatatattcttttggctatct--tttctgtacattgctcaatttaagataacacaaagtgaaaagtcatagatgtaaatatatgatattggat-----
               |||||||  |||||| |||||||| | || |||||||| |||| |||||| ||||||||||||||||| ||||||||||||||||||||||| ||       ||||||| | | |  |||||||   |||| || || || || | | | |   || | | |   ||   ||   | || | | | |     
CATTTACATCTCCAGGTTATGGTGAACTCTACAGAGAAAGTAAGGCTTGCTGGGAATCCAAATGTGATGGTCTGTGAGCGTGGTACCATGTTTGGCTACAgttaaggcat-------cttttggttctttattttctgtttgttgcccacttaaacatgaaaaagatacaacaattaatcataggaactaaggaaagtaggtaacat

upper sequence: LOC_Os12g10784.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G168510_T02 (Zea mays), 5'ss of exon 8
GTTATGGCCAACTCTGCAGAGAAAATCAGACTTGCTGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaatatatattcttttggctatct--tttctgtacattgctcaatttaagataacacaaagtgaaaagtcatagatgtaaatatatgatattggat-----
|||||||  |||||| |||||||| | || |||||||| |||| |||||| ||||||||||||||||| ||||||||||||||||||||||| ||       ||||||| | | |  |||||||   |||| || || || || | | | |   || | | |   ||   ||   | || | | | |     
GTTATGGTGAACTCTACAGAGAAAGTAAGGCTTGCTGGGAATCCAAATGTGATGGTCTGTGAGCGTGGTACCATGTTTGGCTACAgttaaggcat-------cttttggttctttattttctgtttgttgcccacttaaacatgaaaaagatacaacaattaatcataggaactaaggaaagtaggtaacat

upper sequence: LOC_Os12g10784.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G79500.2 (Arabidopsis thaliana), 5'ss of exon 8
GTTATGGCCAACTCTGCAGAGAAAATCAGACTTGCTGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaatatatattcttttggctatcttttctgtacattgctcaatttaagataacacaaagtgaaaagtca--tagatgtaaatatatgatattggat--------------------------------------------------------------------------------------------
|| ||||  || || || ||||| |||||||| ||||| |||| |||||||||||| |||||  | || |||||||| || |||||| |   |  || |    |||    |||  | ||     | |     |||  |||||     || |   | |  |      || || || |  | |||||||                                                                                            
GTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACAgtaagttatcatct-ccttttcaaatattgtgtccacggaatttagtattgtagatattctcaaatctcatgcaaatctcttggaattaaaaaaaattggattgctgaagtatacattagagggtgctaaaacaattttttttctctgcctttacaattgactgactgatactctttttggttttgattatcag

upper sequence: LOC_Os12g10784.1 (Oryza sativa), 5'ss of exon 7
lower sequence: EFJ32189 (Selaginella moellendorffii), 5'ss of exon 6
GTTATGGCCAACTCTGCAGAGAAAATCAGACTTGCTGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaatatatattcttttggctatcttttctgtacattgctcaatttaagataacacaaagtgaaaagtcatagatgtaaatatatgatattggat
|| ||| |||| || || |  || ||||| ||||||||||||| ||| || |||||||||||||| |||||||||||||||||||||     | ||| | ||   ||  | |  | | |||   | || |     |    |  |    ||                                   
GTGATGACCAATTCAGCCGCTAAGATCAGGCTTGCTGGAAATCCAAACGTCATGGTCTGTGAGCGCGGCACCATGTTTGGCTACAgt----aagtattttttggattc-caaattctcctgctgagtggtgtggctggattttcgtgtag-----------------------------------

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|157651751|gb|EX451385.1|EX451385
EST:     TGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACA                         ATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATT
genomic: TGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaat ... tccgacacagATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATT
EST: gi|41883464|gb|BX928437.1|BX928437
EST:     TGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACA                         ATGATCTAATTGTTGATCCAAGGAATCTTGAGTGGGTGAGAGAAGCTTATT
genomic: TGGAAATCAAAATGTTATGGTCTGTGAGCGTGGCACCATGTTTGGCTACAgttaaggaat ... tccgacacagATGATCTAATTGTTGATCCAAGGAATTTTGAGTGGCTGAGAGAAGCTAATT