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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAACATGATCATGAGGGCAGGGTTATTACTCTGGAGTTTGATGGTTTTTACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaagactgcttttcccatctagtattactgttgctttatagtattttatttcaattgctttgatctaattttgttttcttgcattttgattttcag

Basic information

species Oryza sativa
transcript LOC_Os01g58690.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g58690.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G134072_T02 (Zea mays), 5'ss of exon 5
TGAACATGATCATGAGGGCAGGGTTATTACTCTGGAGTTTGATGGTTTTTACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaaga-ctgcttttcccatctagtattactgttgctttatagtattttatttcaattgctttg---atctaattttgttttcttgcattttgattttcag-
 || | |||||| || |||||| |||||||  |||||||||||| |||||||||||| ||||| ||||| ||||||||||| |||  | ||||||||| ||||| | ||  | ||||    |  | ||| ||||    |||  | || || | ||||||||| |   ||  ||||||| | | |||| | ||| | ||||| 
AGAGCGTGATCAGGAAGGCAGGCTTATTACCTTGGAGTTTGATGATTTTTACTTGGTCAATGCTTATGTCCCAAATTCTGGCCGTGGTTTACGTAGACGGgtaaaagctattcttccttcatgttgttagtgtt--catattatgttgtactgcaattgcttaggatattgaattttgctctattgcttcttggtcttcaga

upper sequence: LOC_Os01g58690.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G086246_T01 (Zea mays), 5'ss of exon 4
--------------------------------------TGAACATGATCATGAGGGCAGGGTTATTACTCTGGAGTTTGATGGTTTTTACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaaga-ctgcttttcccatctagtattactgttgctttatagtattttatttcaattgctttgatctaattttgttttcttgcattttgattttcag
                                       || |||||||| || |||||| |||||||  |||||||||||| |||||||||||| ||||| ||||| |||||||||||||||  | ||||||||||| ||| | ||  | ||||    |  | ||| ||||    |||  | || || | ||||                                         
GTACAACCAATCTCAGTTCAATATGGGCTTGGCATACCAGAGCATGATCAGGAAGGCAGGCTTATTACCTTGGAGTTTGATGATTTTTACTTGgtcaatgcttatgtcccaaattctggtcgtggtttacgtagactgataaaagctattcttccttcatgttgttagtgtt--catattatgttgtactgcaat-----------------------------------------

upper sequence: LOC_Os01g58690.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM5G800154_T01 (Zea mays), 5'ss of exon 6
TGAACATGATCATGAGGGCAGGGTTATTACTCTGGAGTTTGATGGTTTTTACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaagactgcttttcccatctagtattactgttgctt-tatagtattttatttcaattgctttg---atctaattttgttttcttgcattttgattttcag-
 || | |||||| || |||| | |||||||  |||||||||||| |||||||||||| ||||| ||||| |||||||||||||||  | ||||||||||||||| | |  || | || ||   | ||  |  || |  |||  | || || | ||||||||| |   ||  ||||||| | | |||| | ||| | ||||| 
AGAGCGTGATCAGGAAGGCATGCTTATTACCTTGGAGTTTGATGATTTTTACTTGGTCAATGCTTATGTCCCAAATTCTGGTCGTGGTTTACGTAGACTGgtaaaagttattcttccttc--atgttgttagtgttcatattatgttgtactgcaattgcttaggatattgaattttgctctgttgcttcttggtcttcaga

upper sequence: LOC_Os01g58690.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G139329_T02 (Zea mays), 5'ss of exon 4
TGAACATGATCATGAGGGCAGGGTTATTACTCTGGAGTTTGATGGTTTTTACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaaga-ctgcttttcccatctagtattactgttgctttatagtattttatttcaattgctttg---atctaattttgttttcttgcattttgattttcag
 || |||||||| || |||||| |||||||  |||||||||||| |||||||||||| ||||| ||||| ||||||||||| |||  | ||||||||||||||| | ||  | ||||    |  | ||| ||||    |||  | || || | ||||||||| |   ||||||||||||| | |||| | ||| | |||||
AGAGCATGATCAGGAAGGCAGGCTTATTACCTTGGAGTTTGATGATTTTTACTTGGTCAATGCTTATGTCCCAAATTCTGGCCGTGGTTTACGTAGACTGgtaaaagctattcttccttcatgttgttagtgtt--catattatgttgtactgcaattgcttaggatatctaattttgttctgttgcttcttggtcttcag

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|27546396|gb|CA764589.2|CA764589
EST:     ACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTG                         AATTACAGGGTCAATAACTGGGATCCGTGTTTCAGCAACTATGTAAAA
genomic: ACTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaagactgc ... tgattttcagAATTACAGGGTCAATAACTGGGATCCGTGTTTCAGCAACTATGTAAAA
EST: gi|86420470|gb|CI056459.1|CI056459
EST:     TATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTG                         AATTACAGGGTCAATAACTGGGATCCGTGTTTCAGCAACTATGTAAAA
genomic: TATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaagactgc ... tgattttcagAATTACAGGGTCAATAACTGGGATCCGTGTTTCAGCAACTATGTAAAA
EST: gi|8528070|gb|AU092885.1|AU092885
EST:     CTTTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTG                         AATTACAGGGTCAATAACTGGGATCCGTGTTTCAGCAACTATGTAAAA
genomic: C-TTGGTAAATGCCTATGTTCCAAATTCTGGTCGTTTTCTACGTAGACTGgtaagactgc ... tgattttcagAATTACAGGGTCAATAACTGGGATCCGTGTTTCAGCAACTATGTAAAA