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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgatcagcatgcggagaattggttggaaacataatgacttttttagtaaaagtagtgttaacctgtttcaactgttttgattctcagGGAGGTGACTTGATAAAGTGGGACAAAGCCAAGGTTGGATATTATGTAGGAGTTGATATCGCCGAAGGCTCG

Basic information

species Oryza sativa
transcript LOC_Os08g08200.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g08200.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G042398_T01 (Zea mays), 3'ss of exon 4
gtgatcagcatg----cggagaattggttgg--aaacataatgacttttttagtaaa-agtagtgttaacc-------tgtttcaactgttttgattctcagGGAGGTGACTTGATAAAGTGGGACAAAGCCAAGGTTGGATATTATGTAGGAGTTGATATCGCCGAAGGCTCG
|| |   |||||    ||  |  |||  | |   ||   ||||| |  |    |  |  ||||  ||||||       |||    | |  ||||     ||||||||||| |||||||||||||| |||||||||||||| || |||||||| |||||||| || |||||||||
gttagtggcatgttgccgttgccttgcatagtagaaagcaatgattcctgagcttgatggtagcattaaccattaaggtgtgcttatttgtttgtaatgcagGGAGGTGATTTGATAAAGTGGGATAAAGCCAAGGTTGGCTACTATGTAGGGGTTGATATTGCTGAAGGCTCG
















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|58693212|gb|CK081899.1|CK081899
EST:     AGCTCTACGCACACCCCGGAGACTGCGTTCTTGATCTGGCTTGTGGAAAG                         GGAGGTGACTTGATAAAGTGGGACAAAGCCAAGGTTGGATATTATGTAGGA
genomic: AGCTCTACGCACACCCCGGAGACTGCGTTCTTGATCTGGCTTGTGGAAAGgtgatcagca ... tgattctcagGGAGGTGACTTGATAAAGTGGGACAAAGCCAAGGTTGGATATTATGTAGGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgacttttttagtaaaagtagtgttaacctgtttcaactgttttgattctcagGGAGGTGACTTGATAAAGTGGGACAAAGCCAAGGTTGGATATTATGTAGGAGTTGATATCGCCGAAGGCTCG
                                       ctgtttt  CT-rich tract
      ttttttagtaaaagta  TA-rich tract