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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattgtgaaaatttctcttttaatcatacgtagtgtgcgataagaaatgcctataaattactgaatattgttacatgactattttttcctcttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACACTAGAGAATGATAAGTTGCGTGGCGA

Basic information

species Oryza sativa
transcript LOC_Os01g36840.1
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g36840.1 (Oryza sativa), 3'ss of exon 16
lower sequence: GRMZM2G030596_T02 (Zea mays), 3'ss of exon 16
tattgtga-aaatttctcttttaatcatacgtagtgtgcgataagaaatgcctataaattactgaatattgttacatgactattttttcctcttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACACTAGAGAATGATAAGTTGCGTGGCGA
 || |    || ||| |    | ||    |  | | ||  |||  ||||   || |   | |    |||   |       | |||| | | | |||||||  |   ||| ||||||||||| ||||||||||| |||||||  |||||||| || |||||||| ||||||||    ||
-atagaagcaagttttttcgatgatagatcacaatatgtaatat-aaatatttaaaggcttccttctatgact-----gtttttttgttcgcgtttgacaatatcagGATGTTTCTCAACGAAGACGGTTTAATGAATACAAAACTTTGACCCTGGAGAATGACAAGTTGCGAAATGA
















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|88850945|gb|CI096335.1|CI096335
EST:     TCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: TCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|116875003|gb|EC365511.1|EC365511
EST:     ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|86437853|gb|CI119773.1|CI119773
EST:     ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|116874995|gb|EC365503.1|EC365503
EST:     ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|86257213|gb|CI004031.1|CI004031
EST:     ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|33793365|gb|CF322564.1|CF322564
EST:     ATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: ATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|116875534|gb|EC366042.1|EC366042
EST:     ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
genomic: ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACA
EST: gi|2443000|gb|C74771.1|C74771
EST:     ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCT                         CACTTGGACGTT
genomic: ATATTGATGCCCTTGGATCCAAGACAGACAGTGCTGACCAAGATGGATCTgtaagtatca ... cttttgacagCACTTGGACGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatgcctataaattactgaatattgttacatgactattttttcctcttttgacagCACTTGGACGTTTCTCAACGGAGACGGTTTAACGAATACAGGACTTTGACACTAGAGAATGATAAGTTGCGTGGCGA
                                 ctattttttcctcttt  CT-rich tract
      tataaattactgaata  TA-rich tract