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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtacccattctcaccatggtagtattcctgcacatactcgcaggttatcataacaagtgatccaaattataacttgaaatagttgacattgtaatcaaatagtgtgaatctttacctgcctttttattcccttacagGCATGAACCTGTGTTGGTTCGACTTGCAAATTGGGAAGGTATTAAAAAG

Basic information

species Oryza sativa
transcript LOC_Os01g65070.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g65070.1 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G005444_T01 (Zea mays), 3'ss of exon 8
gtaagtacccattctcaccatggtagtattcctgcacatactcgcaggttatcataacaagtgatccaaattataacttgaaatagttgacattgtaatcaaatagtgtgaatctttacctgcctttttattcccttacagGCATGAACCTGTGTTGGTTCGACTTGCAAATTGGGAAGGTATTAAAAAG
                                  || ||  | |    | |    | | |   | |    | | || |   || ||      |  | ||  | || || | |     || |     |||      || ||| ||| ||||||| ||||  ||||||||||||||||||||||||||||||
----------------------------------caaatggtgg--actcaatccacccacctagcactgtcacaaataataagagc-atggtcattattcactattgaggac----acattaacctttgcctttttgcagACATCAACCTGTCTTGGCCCGACTTGCAAATTGGGAAGGTATTAAAAAG
















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|88381842|gb|CI682518.1|CI682518
EST:     CGGTTTTACGACAAAGCCCTTGCCTTTGGTCTTAAGGGATATGCAAAGCT                         GCATGAACCTGTGTTGGTTCGACTTGCAAATTGGGAAGGTATTAAAAAG
genomic: CGGTTTTACGACAAAGCCCTTGCCTTTGGTCTTAAGGGATATGCAAAGCTgtaagtaccc ... tcccttacagGCATGAACCTGTGTTGGTTCGACTTGCAAATTGGGAAGGTATTAAAAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacattgtaatcaaatagtgtgaatctttacctgcctttttattcccttacagGCATGAACCTGTGTTGGTTCGACTTGCAAATTGGGAAGGTATTAAAAAG
 agttgac  putative branch site (score: 4)
                          tctttacctgcctttt  putative PPT
     attgtaatcaaata  TA-rich tract