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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtattgcagcaacgtttctctcatgaaaagaagactaaaatatgcattattatggtgtttattgaattatttttgcactgtgcagGTATTTACTTCTGCTGCAGCTGATGATACAAAAAGTATTGTCCTATTGGCATTTGAAACTATGGAAAAAATTGTTCGAGATTACTTTCCATACATAACTG

Basic information

species Oryza sativa
transcript LOC_Os06g41780.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g41780.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G092586_T01 (Zea mays), 3'ss of exon 8
---------------gtatgtattgcagcaa-cgtttctctcatgaaaagaagactaaaatatgcattattatggtgtttattgaattatttttgcactgtgcagGTATTTACTTCTGCTGCAGCTGATGATACAAAAAGTATTGTCCTATTGGCATTTGAAACTATGGAAAAAATTGTTCGAGATTACTTTCCATACATAACTG
                ||| || |      |   ||| | |  | | |      ||   |  |    |||| ||   |   ||| |   |||   ||   ||||||| ||||||| |||||||||||||||||||| ||||| |||||||||||||||||| ||  |||||||||||||||||||||| ||||   |||||||||
gtatgtatgattcctatatttagtttgttgagttttttttttgttagatcttacctgtgaggta-gctattgtgtcctgccttgtaacttttcatcaacctgcagGTTTTTACTTTTGCTGCAGCTGATGATACAAGAAGTACTGTCCTATTGGCATTTGAGACGGTGGAAAAAATTGTTCGAGATTATTTTCATCACATAACTG
















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|86894812|gb|CI310189.1|CI310189
EST:     TTCTAAGTCGTGTCAACAACATAAAATCTGGCTGGAAGGGTGTCTTCCTG                         GTATTTACTTCTGCTGCAGC
genomic: TTCTAAGTCGTGTCAACAACATAAAATCTGGCTGGAAGGGTGTTTTTATGgtatgtattg ... cactgtgcagGTATTTACTTCTGCTGCAGC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagactaaaatatgcattattatggtgtttattgaattatttttgcactgtgcagGTATTTACTTCTGCTGCAGCTGATGATACAAAAAGTATTGTCCTATTGGCATTTGAAACTATGGAAAAAATTGTTCGAGATTACTTTCCATACATAACTG
  gactaaa  putative branch site (score: 2)
                                       tttttgc  putative PPT
               attattatggtgttta  TA-rich tract