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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTATGGACATGTTGGGTCCAAGCCTGTGGGATGTTTGGAATAATAATTCCCACTCgtaagttttctagttgttcgtcaatatattcttgaatgttcatgtttaattagctcagttaatatgatatttttctttctattacag

Basic information

species Oryza sativa
transcript LOC_Os05g11140.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G116151_T03 (Zea mays), 5'ss of exon 5
ATTATGGACATGTTGGGTCCAAGCCTGTGGGATGTTTGGAATAATAATTCCCACTCgtaagttttctagttgttcgtcaatatattctt--gaatgttcatgtttaattagctcagtt----aatatgatatttttctttctattacag
||||||||||||||||| |||||||| |||||||||||||||||||| || ||||||||||| |   |     |    | | | |||||   |||||||  || |  ||  |||||||    |||    |   ||| || || | ||||
ATTATGGACATGTTGGGGCCAAGCCTATGGGATGTTTGGAATAATAACTCTCACTCgtaagtatctaatgcagttccaatttttttctttaaaatgttctcgtctggttttctcagtttcttaattgattcaatttgttcctttaacag

upper sequence: LOC_Os05g11140.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv09s0002g03680.t01 (Vitis vinifera), 5'ss of exon 5
ATTATGGACATGTTGGGTCCAAGCCTGTGGGATGTTTGGAATAATAATTCCCACTCgtaagttttctagttgttcg-tcaatatattcttgaatgttc---atgtttaattagctcagttaatatgatatttttcttt--ctattacag------------------
 ||||||||||| | || |||||| |||||||||||||||||||||| || ||| ||| |||    |     |  | |  ||   || ||  ||| |    ||| ||   | |||      || |  |  || | |||  ||| |  ||                  
GTTATGGACATGCTTGGACCAAGCTTGTGGGATGTTTGGAATAATAACTCTCACACgtgagtgagatgaaaatatgatttattattttttatatgctacaaatggttctgttgcttttaccattttgtgcttgtatttgcctaatgaagatatttgcttaattccag
















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|29681938|gb|CB678213.1|CB678213
EST:     GACATGTTGGGTCCAAGCCTGTGGGATGTTTGGAATAATAATTCCCACTC                         AATGTCTGTTGAAATGGTTGCTTGTATTGCTATAGAAGCAATCTCCATATT
genomic: GACATGTTGGGTCCAAGCCTGTGGGATGTTTGGAATAATAATTCCCACTCgtaagttttc ... tctattacagAATGTCTGTTGAAATGGTTGCTTGTATTGCTATAGAAGCAATCTCCATATT