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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaggttttgaataatttagaacaaccaatcaaacaaatatgctgttcattgttgaattctgtttgtgtcaccttctatcatatgttctatgaaatttcagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATCCGTTCTAGTTCATTCATTGTCAGTGTGCATATCTCTGTTGGATCCAAAA

Basic information

species Oryza sativa
transcript LOC_Os01g40340.3
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g40340.3 (Oryza sativa), 3'ss of exon 7
lower sequence: GRMZM2G470292_T01 (Zea mays), 3'ss of exon 9
gaggttttgaataatttagaacaaccaatcaa-acaaatatgctgttcattgttgaattctgt--ttgtgtcaccttctatcatatgttctatgaaattt-cagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATCCGTTCTAGTTCATTCATTGTCAGTGTGCATATCTCTGTTGGATCCAAAA
      |  | |  |  |||     ||  | | |||| |  |   ||||||||| |||||  |  |    ||   ||   |  |||||||||||||| || |||||||||| ||||| | || | ||| || |||||||||||||| |||||||| |||||  |||||||| ||||||||||||||||| || |||||||||||
----actatatttttgcagaggcctcaccccatacaagtgggaatttcattgtttaattccttcctcaaatcttttttcttgttatgttctatgaaaattgcagTTTTGTTCGGAGGTTGTTCCATCACGCTCTTGAAGAATCAAGACCCAAATCTGTTCTGCTTCATTCACTGTCAGTGTGCATATCTTTGCTGGATCCAAAA
















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|2310353|gb|C26508.1|C26508
EST:     GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATNCAGCCCAAG                         TTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
genomic: GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAGgtttccattt ... gaaatttcagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
EST: gi|58605044|gb|CK033077.1|CK033077
EST:     GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAG                         TTTNGTCGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
genomic: GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAGgtttccattt ... gaaatttcagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
EST: gi|58672704|gb|CK061390.1|CK061390
EST:     GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAG                         -TTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
genomic: GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAGgtttccattt ... gaaatttcagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
EST: gi|29669991|gb|CB666266.1|CB666266
EST:     GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAG                         TTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC
genomic: GTGACTCGATGTGCTCCTCCATCTCTTGCTGCAAAGATATGCAGCCCAAGgtttccattt ... gaaatttcagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcattgttgaattctgtttgtgtcaccttctatcatatgttctatgaaatttcagTTTTGTTGGGAGGCTATTTCGTCATGCACTTGAAGAATCAAGGCCCAAATCCGTTCTAGTTCATTCATTGTCAGTGTGCATATCTCTGTTGGATCCAAAA
                                          tatgaaattt  TA-rich tract