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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACATTGCTGGATAGAGTAGAATTCTATGAATCTGATCTTCTCTCTTACTGCAGAGACAATAAAATTGAACTTGATCGCATTGTTGGATGCATACCACAGgtacagtcatgctaatatattcttttttgaaaggaaattatagtaaaccagacggaaggaaaactcttactccccaaatcctcccttttcag

Basic information

species Oryza sativa
transcript LOC_Os05g01470.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g01470.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G098039_T01 (Zea mays), 5'ss of exon 3
AACATTGCTGGATAGAGTAGAATTCTATGAATCTGATCTTCTCTCTTACTGCAGAGACAATAAAATTGAACTTGATCGCATTGTTGGATGCATACCACAGgtacagtcatgctaatatattcttttttgaaaggaaattatagtaaaccagacggaaggaaaactcttactccccaaatcctcccttttcag
||||||||| |||||||| |||||||||||||||||||| || |||||||| |||||||| || || || || ||||| ||||||||||||||||||||||||||||||    |   |   || ||   |       | | |  ||||  ||  |||||||||   |||||  |   ||   |   ||||||
AACATTGCTCGATAGAGTTGAATTCTATGAATCTGATCTCCTTTCTTACTGTAGAGACAACAAGATAGAGCTCGATCGTATTGTTGGATGCATACCACAGgtacagtca----agagtcaactgttccaatgttcggtgagatgaaac--gaaagaaggaaaatatttacttacactatatccttatttcag

upper sequence: LOC_Os05g01470.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA16G00210.1 (Glycine max), 5'ss of exon 3
AACATTGCTGGATAGAGTAGAATTCTATGAATCTGATCTTCTCTCTTACTGCAGAGACAATAAAATTGAACTTGATCGCATTGTTGGATGCATACCACAGgta---cagtcatgctaatatattcttttttgaaaggaaattatagtaaaccagacggaaggaaaactcttactccccaaatcctcccttttcag---------
||| ||||||||||| ||||| ||| |||||||||||||||| || || ||||| || ||  | ||| |||||||  | ||||||||||||||||| ||||||   |    | ||  |  | ||    ||| |  |  |    ||| |||     |   ||      ||||  | |    |||   | ||||            
AACTTTGCTGGATAGGGTAGAGTTCCATGAATCTGATCTTCTATCCTATTGCAGGGAAAAAGACATTCAACTTGAAAGAATTGTTGGATGCATACCTCAGgtaattccacaacgcacagttgtttgcctttcattgaga----tagaaaaaagtgcaccagtgtttgtcttggttcggtcatcaatcattttgtaaccgatgtc
















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|29630290|gb|CB635299.1|CB635299
EST:     GCAGAGACAATAAAATTGAACTTGATCGCATTGTTGGATGCATACCACAG                         ATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCC
genomic: GCAGAGACAATAAAATTGAACTTGATCGCATTGTTGGATGCATACCACAGgtacagtcat ... cccttttcagATTCTTAACCCAAATCCAGAAGCAATGTCAAAGATCGTAACTGAAAATTCC