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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAAGCATGGATGGAAAACCTTATGGGTACCACAATATGATTTTTAGTTGGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaatatcactttttgccaacagcattttgctaacgcttatattattaagtgtgctatatcttatcgccatatattttcataggctggttgctt...

Basic information

species Oryza sativa
transcript LOC_Os01g58114.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g58114.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G139374_T02 (Zea mays), 5'ss of exon 4
AAAAAGCATGGATGGAAAACCTTATGGGTACCACAATATGATTTTTAGTTGGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgat-caatatcactttttgccaacagcattttgctaacgcttatattattaagtgtgct--atatcttatcgccatatattttcataggctggttgctt
|||||||||||| || |||||||||||||| ||||||||||| ||||| |||||||||||||| || || || |||||||| ||||||||||||||||||||||||| | | ||       |   || | || ||| ||        | ||  ||  || | |  |||||||  | |  | | ||    |||  | | |    
AAAAAGCATGGAGGGGAAACCTTATGGGTATCACAATATGATATTTAGCTGGATTGATACCATCAGTGATAATTATCCACCACCATTAGATGCTCATGTGgtatgattctacatgttcaactttgaagatcactttactgctaaacctgtttatatatgcgttgcatatcttgcc-ctgtgtgttactgtagcttagatat--

upper sequence: LOC_Os01g58114.2 (Oryza sativa), 5'ss of exon 4
lower sequence: AT5G54870.1 (Arabidopsis thaliana), 5'ss of exon 4
AAAAAGCATGGATGGAAAACCTTATGGGTACCACAATATGATTTTTAGTTGGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaa---tatcactttttgcca-acagcattttgctaacgcttatattattaagtgtgctatatcttatcgccatatattttcataggctggttgctt
    |||||||| || ||||| ||||| || |||||  ||||||||||||||||||||||| | || || ||||| || || ||  ||||||| ||| | ||| | |      | ||| || |  | | | ||   ||    || |  || | | | || |  | | || |||   ||      || |   ||           
TCGCAGCATGGAGGGTAAACCATATGGTTATCACAACTTGATTTTTAGTTGGATTGATACCGTTAGTGAAAACTACCCGCCTCCTCTAGATGCCCATCTTgtaagtttttgtttttcatttctcacaatatagttcttgatgaatgaatacactttcaaat-cgttttaacttcgggcttctctttctttcag-----------

upper sequence: LOC_Os01g58114.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv19s0090g00100.t01 (Vitis vinifera), 5'ss of exon 4
AAAAAGCATGGATGGAAAACCTTATGGGTACCACAATATGATTTTTAGTTGGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaatatcactttttgccaacagcattttgcta-acgcttatattatta-agtgtgctatatcttatcgccatatattttcataggctggttgctt
|   |||||||| || ||||||||||| ||||| || ||||| ||||| ||||| ||| |  |    || ||||||||||| || |||||||||||||||||||  |   | ||  || || |  | |  |     | | | ||   ||  |  | |||  |  || | |    |   |  ||| |  |      | |||  
ACGTAGCATGGAAGGCAAACCTTATGGTTACCATAACATGATATTTAGCTGGATAGATGCTCTGGATGAAAACTATCCACCCCCCTTAGATGCTCATGTGgtattgtttttctctattgtttctcaaattaagcaacaacatgcaattaaaacaagagtcagaaatgtttctcagatttggattatttttttaaaggtgc--

upper sequence: LOC_Os01g58114.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv19s0090g00130.t01 (Vitis vinifera), 5'ss of exon 4
AAAAAGCATGGATGGAAAACCTTATGGGTACCACAATATGATTTTTAGTTGGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaatatcactttttgccaacagcattttgctaacgcttatattat-taagtgtgctatat-cttatcgccatatattttcataggctggttgctt
|   ||||  || || ||||||||||| ||||| || ||||| ||||| ||||| |||||  |    || ||||||||||| || |||||||||||||||||||  |   | ||  || ||    |   ||||||       | | |   ||  | |||   | |||  || |   | | ||| |  |||   |        
ACGTAGCAGTGAAGGCAAACCTTATGGTTACCATAACATGATATTTAGCTGGATAGATACTCTGGATGAAAACTATCCACCCCCCTTAGATGCTCATGTGgtattgtttttttctattgttaaatatttcattttctggctacatctgcaatacaggtggattctatatttcttttcttttatctctatatctttcaaaa--

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|3107375|gb|D43115.1|D43115
EST:     GGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTG                         GTTGCCTCTGTGATGACTATGTGGAACAAACTTCAACCAGAGTATGCTGCC
genomic: GGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaa ... attggcctagGTTGCCTCTGTGATGACTATGTGGAACAAACTTCAACCAGAGTATGCTGCC
EST: gi|218493202|gb|FG958053.1|FG958053
EST:     GGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTG                         GTTGCCTCTGTTATGACTATGTGGAACAAACTTCAACCAGAGTATGCTGCC
genomic: GGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaa ... attggcctagGTTGCCTCTGTGATGACTATGTGGAACAAACTTCAACCAGAGTATGCTGCC
EST: gi|25797971|gb|CA753932.1|CA753932
EST:     GGATTGATACCATAAGCGACNACTATCCACCGCCATTAGATGCTCATGTG                         GNTGCCTCTGTGATGACTATGTGGGACAAACTTCAACCAGAGTATGCTGCC
genomic: GGATTGATACCATAAGCGACAACTATCCACCGCCATTAGATGCTCATGTGgtatgatcaa ... attggcctagGTTGCCTCTGTGATGACTATGTGGAACAAACTTCAACCAGAGTATGCTGCC