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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgccaaatgccctatcatatgttaccaatatttcacgtactctactttacaccctacaaacttacatttaatctcatcttcatgcagGGCATCAAGTTTTTTGAACCTGAG

Basic information

species Oryza sativa
transcript LOC_Os02g13970.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g13970.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G019358_T01 (Zea mays), 3'ss of exon 5
gtacgccaaatgccctatcatatgttaccaatatttcacgtactctactttacaccc-tacaaactt-acattt-aatctcatcttcatgcagGGCATCAAGTTTTTTGAACCTGAG
||| | || || | | ||  |||| ||  || | ||   |  ||||||  |    |   |  |   | ||| || | ||||   ||||||||||||||||| ||||| |||||||||
gtatgtcacatactcaatattatgataggaagaatttgtgctctctaccatctggctacatgagtgtgacacttcagtctcgaattcatgcagGGCATCAAATTTTTCGAACCTGAG
















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|29626259|gb|CB631270.1|CB631270
EST:     TAGTTGGGCCAAAGGAAGGCGATACACCAGACAGGCAGAAGTATAAACAG                         GGCATCAAGTTTTTTGAACCTGAG
genomic: TAGTTGGGCCAAAGGAAGGCGATACACCAGACAGGCAGAAGTATAAACAGgtacgccaaa ... cttcatgcagGGCATCAAGTTTTTTGAACCTGAG
EST: gi|58607818|gb|CK035851.1|CK035851
EST:     AGGCGATACACCAGACAGGCAGAAGTATAAACAG                         GGCATCAAGTTTTTTGAACCTGAG
genomic: AGGCGATACACCAGACAGGCAGAAGTATAAACAGgtacgccaaa ... cttcatgcagGGCATCAAGTTTTTTGAACCTGAG
EST: gi|88389138|gb|CI597936.1|CI597936
EST:     TAGTTGGGCCAAAGGAAGGCGATACACCAGACAGGCAGAAGTATAAACAG                         GGCATCAAGTT
genomic: TAGTTGGGCCAAAGGAAGGCGATACACCAGACAGGCAGAAGTATAAACAGgtacgccaaa ... cttcatgcagGGCATCAAGTT
EST: gi|29623795|gb|CB628806.1|CB628806
EST:     TAGTTGGGCCAAAGGAAGGCGATACACCAGACAGGCAGAAGTATAAACAG                         GGCATCAAGTTTTTTGAACCTGAG
genomic: TAGTTGGGCCAAAGGAAGGCGATACACCAGACAGGCAGAAGTATAAACAGgtacgccaaa ... cttcatgcagGGCATCAAGTTTTTTGAACCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcacgtactctactttacaccctacaaacttacatttaatctcatcttcatgcagGGCATCAAGTTTTTTGAACCTGAG
                                       tctcatcttc  CT-rich tract
                         aaacttacatttaat  TA-rich tract