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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtggaatgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg...

Basic information

species Oryza sativa
transcript LOC_Os01g37837.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G172101_T01 (Zea mays), 5'ss of exon 3
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtgga---atgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg
||| || |||||||||||||||||| |||| ||||| ||||||||| ||||||||| ||||| |||||||| ||||| || |||||||| ||||||||| || ||| | ||||| | | | | || | | | || | ||| | | || || | | | | | | |
CAAAGAAGTTGAGGTGCAGGAGGCCAAGAGCACCCTCGACGCCAAGCTCACGACGATTGGGAACATCGTGCATGAGTCCGTGCCAGTCAGCGAAGACGAGgtgatctggaaatttagttggtgcttgttctggctatttcctttccactgaagtaactgttagattgt--aatgtggcagcctaactattagctccactgtc-

upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G124439_T01 (Zea mays), 5'ss of exon 3
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtggaatgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg-
||| || |||||| ||||||||||| |||| ||||| |||||| || ||||||||| ||||| |||||||| ||||| || |||||| | ||||||||| || ||| | || | | | || ||||| | | | | || | | ||| | || | || | |||||
CAAAGAAGTTGAGGTGTAGGAGGCCAAGAGCACCCTCGACGCCAAGGTCACGACGATTGGCAACATCGTGCATGAGTCCGTGCCAGTCAGCAACGACGAGgtgacctggaaatttagttggt-gtttgttctggctatttgctttccactgaagtaactgttagattgtagtgtgacatcctaaatattagctgcactgtc

upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G355297_T01 (Zea mays), 5'ss of exon 3
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtgga---atgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg
||| || |||||||||||||||||| |||| ||||| |||||| || ||||||||| ||||| |||||||| || || || |||||||||||||||||| | ||| | || || | | | | |||| | | || | |||| ||| || | | | | | | |
CAAAGAAGTTGAGGTGCAGGAGGCCAAGAGCACCCTCGACGCCAAGGTCACGACGATTGGCAACATCGTGCATGAGTCTGTGCCAGTCAGCGATGACGAGgtgacctagaaatttagttggtgtttgttctggctatttgctttccattgaagtaactgttagactgt--agtgtgacatcctaaatattagctccactgtc-

upper sequence: LOC_Os01g37837.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G461189_T01 (Zea mays), 5'ss of exon 2
CAAGGAGACGGAGGTGCAGGAGGCCAAGGGCACGCTCGATGCCAAGCTCGTGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaaaagtgga---atgcttagatttcgtgactattgatcattagcacagtttttggtctgttaagtttgttagatttgcaggtttcccggcacttg
||| || |||||||||||||||||| |||| ||||| |||||| || |||||||| | ||||| ||| |||| || | || |||| || ||||||||| || ||| | || || | | | | || | | | || | |||| ||| || | | | | | | |
CAAAGAAGTTGAGGTGCAGGAGGCCAAGAGCACCCTCGACGCCAAGGTCATGACGATTTGCAACATCGTGTATGAGTCTATGCCATTCAGTGACGACGAGgtgacctggaaatttagttggtgtttgttctagctatttgctttccactgaagtaactgttagactgt--agtgtgacatcctaaatattagctccactgtc-

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|29633861|gb|CB638870.1|CB638870
EST:     TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAG                         GCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT
genomic: TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaa ... ttctttgtagGCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT
EST: gi|33796179|gb|CF323955.1|CF323955
EST:     TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAG                         GCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT
genomic: TGACGATTGGAAACATTGTGCATGAATCCGTCCCTGTCAGCGATGACGAGgtgtgttgaa ... ttctttgtagGCTAACAATTTAATTGTACGGACATGGGGAGAGAGGAGGCTGGAGGGTAAT