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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtagcaatggtttgaggttaaccactgactgattttacacatatagaaaagtaagtgttgtttccatgcttattcaatgtaaacttggttccagtgcagTTAATAATTTGCCTATGGGATATCCGGTACTTCAGCAACCTATGATGCCTGCTCCTGGCCAGCCTCACATTGACTCAATGGCCTGTGGTCTATCCAGCGG

Basic information

species Oryza sativa
transcript LOC_Os01g12080.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g12080.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G816784_T02 (Zea mays), 3'ss of exon 5
---tgtagcaatggtttgaggttaaccactgactgattttacacatatagaaaagtaagtgttgtttccatgcttattcaatgtaaacttggttccagtgcagTTAATAATTTGCCTATGGGATATCCGGTACTTCAGCAACCTATGATGCCTGCTCCTGGCCAGCCTCACATTGACTCAATGGCCTGTGGTCTATCCAGCGG
      || |   || ||   |||| | ||||   |  ||||||| ||  | |   | ||| | || |||| |||||| |||| |||| |||||||||||||||||  ||||| || ||||| ||||| ||||||||||| ||||| ||||||||||| |||||||||||||| ||  |||||||||| ||||| ||||| ||
agtaacagtacaagtctggatttaatccctgaa-aaaattacacacatgtagag--aggtgctattaccattcttatttaatgaaaacctggttccagtgcagTTAGCAATTTACCAATGGGGTATCCAGTACTTCAGCAGCCTATCATGCCTGCTCCCGGCCAGCCTCACATGGATCCAATGGCCTGCGGTCTGTCCAGTGG

upper sequence: LOC_Os01g12080.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G154221_T01 (Zea mays), 3'ss of exon 5
-tgtagcaatggtttgaggttaaccactgactgattttacacatatagaaaagtaagtgttgtttccatgcttattcaatgtaaacttggttccagtgcagTTAATAATTTGCCTATGGGATATCCGGTACTTCAGCAACCTATGATGCCTGCTCCTGGCCAGCCTCACATTGACTCAATGGCCTGTGGTCTATCCAGCGG
    || |   |  |||  |||| |  ||||  | |||||||||  |   |   | ||| |||| |||| |||||| |||| |||| |||||||||||||||||  ||||| || ||||| ||||| ||||||| ||| ||||| ||||| ||||| |||||||||||||| ||| |||||||||||||||| ||||  ||
taacagtacaagcgtgactttaatccttgac-aaatttacacatgcatgtagaaaggtgctgttaccattcttatttaatgaaaacctggttccagtgcagTTAGCAATTTACCAATGGGGTATCCAGTACTTCCGCAGCCTATCATGCCGGCTCCCGGCCAGCCTCACATGGACCCAATGGCCTGTGGTCTGTCCAATGG
















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|58688061|gb|CK076748.1|CK076748
EST:     TCCAAATGTTCCATTGGCTCCTATGCAAAACGGAATGCATCCTATGCCAG                         TTAATAATTTGCCTATGGGATATCCGGTACTTCAGCAACCTATGATGCCTG
genomic: TCCAAATGTTCCATTGGCTCCTATGCAAAACGGAATGCATCCTATGCCAGgtaaagtcca ... tccagtgcagTTAATAATTTGCCTATGGGATATCCGGTACTTCAGCAACCTATGATGCCTG
EST: gi|58590445|gb|CF988753.1|CF988753
EST:     TCCAAATGTTCCATTGGCTCCTATGCAAAACGGAATGCATCCTATGCCAG                         TTAATAATTTGGCTATGGGATATCCG
genomic: TCCAAATGTTCCATTGGCTCCTATGCAAAACGGAATGCATCCTATGCCAGgtaaagtcca ... tccagtgcagTTAATAATTTGCCTATGGGATATCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaaaagtaagtgttgtttccatgcttattcaatgtaaacttggttccagtgcagTTAATAATTTGCCTATGGGATATCCGGTACTTCAGCAACCTATGATGCCTGCTCCTGGCCAGCCTCACATTGACTCAATGGCCTGTGGTCTATCCAGCGG
                         ttattcaatgtaaa  TA-rich tract