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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatctgcttgttctggtatctagatacacaggcttcaattttgacactagggatcggtgaagttgattttgttagtctgtttatcacttccttttcatccctttggcagATTGTTGGACTTGTTGTGGCAGATACCCGTGATAATGCAAAAGCTGCTGCAAATAAAGTCAATATTGAGTATTCTGAACTTCCAGCAATTTTATCCATAG

Basic information

species Oryza sativa
transcript LOC_Os03g31550.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g31550.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G050984_T01 (Zea mays), 3'ss of exon 1
gtatctgcttgttctggtatctagatacacaggcttcaattttgacactagggatcggtgaagttgattttgttagtctgtttatcacttccttttcatccct-ttggcagATTGTTGGACTTGTTGTGGCAGATACCCGTGATAATGCAAAAGCTGCTGCAAATAAAGTCAATATTGAGTATTCTGAACTTCCAGCAATTTTATCCATAG
         | |  ||   |||  | | || | |    ||||  | | |||   |  ||||| |    |   |  |    |  |||| || | | || | | | ||| |||||  ||||| ||||||| || ||||| | ||||||||||||| ||||||| || |||||  |||| ||||||| ||| || |||||||||||||| ||||
--------gtatcttgtattctgtacatactgtcactgatttctatattagtt-tatgtgaaatctcataactaggctaatccatcagttgcatctctttcttattgacagATCATTGGAATTGTTGTTGCTGATACTCATGATAATGCAAAAACTGCTGCCAACAAAGTACATATCGAGTATTGTGAGCTCCCAGCAATTTTATCTATAG
















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|29624754|gb|CB629765.1|CB629765
EST:     TCCATGACAAGGAGGTTTTTGCATCTGATGTTGTTACATGTGTTGGCCAG                         ATTGTTGGACTTGTTGTGGCAGATACCCGTGATAATGCAAAAGCTGCTGCA
genomic: TCCATGACGAGGAGGTTTTTGCATCTGATGTTGTTACATGTGTTGGCCAGgtatctgctt ... cctttggcagATTGTTGGACTTGTTGTGGCAGATACCCGTGATAATGCAAAAGCTGCTGCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cggtgaagttgattttgttagtctgtttatcacttccttttcatccctttggcagATTGTTGGACTTGTTGTGGCAGATACCCGTGATAATGCAAAAGCTGCTGCAAATAAAGTCAATATTGAGTATTCTGAACTTCCAGCAATTTTATCCATAG
      agttgat  putative branch site (score: 5)
                     tctgtttatcacttcc  putative PPT
           attttgtta  TA-rich tract