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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaataataattgattatatgcgtatcagaactttcttctgttacagtctcactagcctttctgaaaaaaaagaaacccttttctactgcagtgtgctccaagctgtcctctgttatttggttatagtatatatttcaactgcttattttgtaatttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG

Basic information

species Oryza sativa
transcript LOC_Os01g43030.1
intron # 15
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43030.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G047093_T01 (Zea mays), 3'ss of exon 15
gtacaataataattgattatatgcgtatcagaactttcttctgttacagtctcactagcctttctgaaaaaaaagaaacccttttctactgcagtgtgctccaagctgtcctctgttatttggttatagtatatatttcaactgctta--ttttgtaatttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG
| | | | ||| || | || || | | | || | || | || | | | || || | | || ||| | |||||||||| || || || ||||| ||||| |||||||| || || || ||||| ||||||||||| ||||||||||||||||||||
-----------------------------------------------------------------atgggtagactagcacttatccaaaa-agaaagcactggagt-ttcttggcaatatacttgcacgctcttttgcatttatctggtttctgtgctgcatgaagGTTGGCCTTGCCGAGAAGACTGCTGTCTTGTTTACAAAAGATGGTGATCAACACAATAATCTTCATGACATGCAGTGCATGTG

upper sequence: LOC_Os01g43030.1 (Oryza sativa), 3'ss of exon 15
lower sequence: GRMZM2G321276_T01 (Zea mays), 3'ss of exon 5
gtacaataataattgattatatgcgtatcagaactttcttctgttacagtctcactagcctttctgaaaaaaaagaaaccct-tttctactgcagtgtgctcca---agctgtcctc-tgttatttggt---tatagtatatatttcaactgcttattttgtaatttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG
| | || | || || | | | | ||| || | ||| || | | || || || || || | | |||| | || || | || | | || ||| | || ||| | | | ||||
-----------------------------------------------------gttggtctcgccgagaagactgttgtcttgtttataaaagatggtgatcaacacaataatcttcatgacatgcagTGCATGTGGTATGCGCTCTTTCTCCTCTGCTATCTATCGCCTATGTTTACTCTCTATCCAACTACAAGATATATATCACTTAAG--------------------------------------------
















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|29635309|gb|CB640318.1|CB640318
EST:     ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAG                         GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
genomic: ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAGgtacaataat ... atttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
EST: gi|3761437|gb|C98685.1|C98685
EST:     ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAG                         GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
genomic: ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAGgtacaataat ... atttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
EST: gi|29643975|gb|CB648982.1|CB648982
EST:     ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAG                         GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
genomic: ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAGgtacaataat ... atttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
EST: gi|29635310|gb|CB640319.1|CB640319
EST:     ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAG                         GTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG
genomic: ATCGTTATTTAAACAGCGAGTGTGTTATGCAGATGCTCCAAGCTGACCAGgtacaataat ... atttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctgttatttggttatagtatatatttcaactgcttattttgtaatttgtgaagGTTGGTCTAGCTGAAAAGACAGCTGTTTTGTTTACTAAGGACGGCGATCAGCACAATAATCTCCATGACATGCAGTGCATGTG
     ttatttggttatagta  TA-rich tract