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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATGCCAGTCGGAGAGAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAGgtatgttgataatctggattggctgttgtagcacatagtattatctgttatttccatgaagttggacgcataagatcaaattaacaagctggcattctta...

Basic information

species Oryza sativa
transcript LOC_Os06g36770.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G165418_T01 (Zea mays), 5'ss of exon 3
---AATGCCAGTCGGAGAGAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAGgtatgttgataatctggattggctgttgtagcacatagtattatctgttatttccatgaagttggacgcataagatcaaattaacaagctggcattctta------
   |||||||| | ||||||| ||||||||||||||| |||  ||||||||||||||||||| |||||||||| |||||||||||||||||||||||||||    | |||| |  | ||  ||||  |      |||   | ||   |||| ||||  ||||| |   |||  |  ||  | | ||| |||   | |||      
CAGAATGCCAGCCAGAGAGAACTGGAGAGACAAGATGTTCCAGTTACTAGACACCCAGAGTTCCGCTACAAAACTGAATTTCAGAGTCATGAACCTGAGgt----taataagc-agtttttctgtcattttctttagaggt-tcctctattgccatatagttgtattgatacaagaaagctgagaagttggtgatgttaataaca

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 4
AATGCCAGTCGGAGAGAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAGgtatgttgataatctggattggctgttgtagcacatagtattatctgttatttccatgaagttggacgcataagatcaaattaacaagctggcattctta------
|||||||| | ||||||| ||||||||||||||| |||  ||||||||||||||||||| |||||||||| |||||||||||||||||||||||||||    | |||| |  | ||  ||||  |      |||   | ||   |||| ||||  ||||| |   |||  |  ||  | | ||| |||   | |||      
AATGCCAGCCAGAGAGAACTGGAGAGACAAGATGTTCCAGTTACTAGACACCCAGAGTTCCGCTACAAAACTGAATTTCAGAGTCATGAACCTGAGgt----taataagc-agtttttctgtcattttctttagaggt-tcctctattgccatatagttgtattgatacaagaaagctgagaagttggtgatgttaataaca

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT1G51690.3 (Arabidopsis thaliana), 5'ss of exon 5
---AATGCCAGTCGGAGAGAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAGgtatgttgataatctggattggctgttgtagcacatagtattatctgttatttccatgaagttggacgcataagatcaaattaacaagctggcattctta
   | ||  |   | |||||  | ||   |   |||  |||  |    || || ||||||||||| || ||||  || |||||||||||||| |||||||||| |||||   ||   ||  ||  |    ||  || |    | |    |||   ||   ||  | ||   |       ||| ||              
AGCAGTGGAACCAGAAGAGAGCTTGAAGAAGCTGATTATCCACTG---AGGCATCCAGAGTTTCGTTATAAAACAGAGTTTCAGAGTCATGACCCTGAGgtat-ttgatttactctgttttcttcttactcagctatttggctataccttttatctgtcttttcatgctctatccttgtttaccag-------------

upper sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT1G17720.2 (Arabidopsis thaliana), 5'ss of exon 3
-AATGCCAGTCGGAGAGAAATGGAGAGACAAGATGCTCCGATTACTAGACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAGgtatgttgataatctggattggctgttgtagcacatagtattatctgttatttccatgaagttggacgcataagatcaaattaacaagctggcattctta-
 |  |   |||   ||   ||   ||| ||    | |        ||| || || |||||||| || ||||  |||||||||||||||||||| ||||||  || | | |    |   | | |     ||| ||  | ||  |||   |||| |||  |   || ||  |       ||  ||| |||    | | | 
CATGGAGGGTCCAGGAAGGATCTTGAG-CAGACGGATTACCCAGTTAGGCATCCTGAGTTTCGATATAAAACAGAATTTCAGAGTCATGAACCAGAGgtacattaaaacttatcaccagattt-----cacttacgagtaattgtg--ttccttgagct---actcaataagcttgcttttcaatctg----tttcag

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|66912787|gb|CX099635.1|CX099635
EST:     GACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAG                         TTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATC
genomic: GACACCCAGAGTTTCGCTACAAAAGTGAATTTCAGAGTCATGAACCTGAGgtatgttgat ... actgttctagTTTGATTACCTCAAAAGTTTGGAAATAGAGGAGAAGATCAACAAGATC