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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catagaagtagctagatgattggtgctttggtagatatgttgtatatgtgcatttgattttgtgaattttctgtggctctctcgtctttggttacttcagGGTAGGAAGATGAGCACGTTAGATGCCACGCGAGCAGAGCTCGGCCTTGTTGTTCTGTACTTGAACAAAGCCGAGGCCAGGGACAAGATATGCAGGGCGA

Basic information

species Oryza sativa
transcript LOC_Os03g02590.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02590.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G029824_T02 (Zea mays), 3'ss of exon 1
catagaagtagc---tagatgattggtgctttggtagatatgttgtatatgtgcatttg-attttgtgaattttctgtggctctctcgtctttggttacttcagGGTAGGAAGATGAGCACGTTAGATGCCACGCGAGCAGAGCTCGGCCTTGTTGTTCTGTACTTGAACAAAGCCGAGGCCAGGGACAAGATATGCAGGGCGA-----
||||   |  ||   | || | || ||| | || | |||| | | |   |     |||      |||  |  | ||| | |  |||| || | |        |||  |||||||||||| || || | ||||| ||||| ||||| ||||| ||||| |||||| ||||||||||||||||| |||||||||| ||||||||||     
catatgcgccgcgcgtcgaagcttagtg-tctgatcgatacgctatccctacaattttctgagctgttgaactcctgcgcccgtctcctcgtcg--------aggacagGAAGATGAGCTCGCTACACGCCACACGAGCGGAGCTTGGCCTGGTTGTCCTGTACCTGAACAAAGCCGAGGCCCGGGACAAGATCTGCAGGGCGATCCAG

upper sequence: LOC_Os03g02590.2 (Oryza sativa), 3'ss of exon 1
lower sequence: Vv15s0048g01890.t01 (Vitis vinifera), 3'ss of exon 1
--catagaagtagctagat-gattggtgctttggtaga-------tatgttgtatatgtgcatttgattttgtgaattttctgtggctctctcgtctttggttacttcagGGTAGGAAGATGAGCACGTTAGATGCCACGCGAGCAGAGCTCGGCCTTGTTGTTCTGTACTTGAACAAAGCCGAGGCCAGGGACAAGATATGCAGGGCGA
   | |   |||  | | | | ||  ||      || |       |||||| | | | ||| |||   ||          |||  | | |  | |    ||| | || ||| ||  |||||||| ||  | ||||| || |||||||| ||||| |||||  || |||| ||||||||||| || || |||||||||||||         
tctacatgtgtattttgtttgtttaatgtgacattataacctcattatgttatttttttgcttttctcttgaaatgaaggctgatgttttgacttagcagGTGAATTTAGGTTAA-AAGATGAGTACTCTGGATGCAACTCGAGCAGAACTCGGTCTTGTAATTTTGTATTTGAACAAAGCTGAAGCTAGGGACAAGATAT---------
















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|86898433|gb|CI292324.1|CI292324
EST:     CCTCCCTGCTCCAGTCTCCAGGAGGAGTGGAAGGGCTCGGCAAACATCAG                         GGTAGGAAGATGAGCACGTTAGATGCCACGCGAGCAGAGCTCGGCCTTGTT
genomic: CCTCCCTGCTCCAGTCTCCAGGAGGAGTGGAAGGGCTCGGCAAACATCAGgtagccgtcc ... gttacttcagGGTAGGAAGATGAGCACGTTAGATGCCACGCGAGCAGAGCTCGGCCTTGTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgcatttgattttgtgaattttctgtggctctctcgtctttggttacttcagGGTAGGAAGATGAGCACGTTAGATGCCACGCGAGCAGAGCTCGGCCTTGTTGTTCTGTACTTGAACAAAGCCGAGGCCAGGGACAAGATATGCAGGGCGA
      atttgat  putative branch site (score: 5)
                                              ttacttc  putative PPT
           attttgtgaatttt  TA-rich tract