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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atttcatagcaatgtccattcgtagtgaaaacgtattttaattatgaattggtgaatctaatgacttcccttcttttcttttgtttaatctcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTGGAATGCCTGAATACTTCAATAATGGACACAGACGAATGCCAACCACTAT

Basic information

species Oryza sativa
transcript LOC_Os03g42820.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g42820.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 4
-atttcatagcaatgtccattcgtagtgaaaacgtattttaattatgaattggtgaatctaatgacttcccttcttttcttttgtttaatctcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTGGAATGCCTGAATACTTCAATAATGGACACAGACGAATGCCAACCACTAT
   |  || | | | ||   |       | | |  |  |   |  ||| || |    || |||||| |  | |  |||  ||  |||  | ||||  |||||||||||| ||| | ||||||||||||||||||||||||| |||||| ||||| || ||| ||||| | || ||||| ||  | |||||||| ||||| |
tgatgaattgtattatcttgtgccgcctatagcacacatct-tcctgattttggctttccaatgacatttccttcttttattgttttgttgtcaaccctagCCAAAGGACAGTCAATACATAACATTAGATGATGGCCGGAGACTCTGCTTGGAGTGTCTGCATACTGCTATTATGGAGACCAATGAATGCCAGCCACTGT
















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|33808071|gb|CF329925.1|CF329925
EST:     CCCATGAAACTGATCGTACTCCTAGGTGCTGCAGTTGTGAACGAATGGAG                         CCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTG
genomic: CCCATGAAACTGATCGTACTCCTAGGTGCTGCAGTTGTGAACGAATGGAGgtttgtgcta ... tcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTG
EST: gi|2311882|gb|C28037.1|C28037
EST:     CCCATGAAACTGATCGTACTCCTAGGTGCTGCAGTTGTGAACGAATGGAG                         CCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTG
genomic: CCCATGAAACTGATCGTACTCCTAGGTGCTGCAGTTGTGAACGAATGGAGgtttgtgcta ... tcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTG
EST: gi|33804763|gb|CF328259.1|CF328259
EST:     CCCATGAAACTGATCGTACTCCTAGGTGCTGCAGTTGTGAACGAATGGAG                         CCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTG
genomic: CCCATGAAACTGATCGTACTCCTAGGTGCTGCAGTTGTGAACGAATGGAGgtttgtgcta ... tcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gaattggtgaatctaatgacttcccttcttttcttttgtttaatctcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTGGAATGCCTGAATACTTCAATAATGGACACAGACGAATGCCAACCACTAT
                   cttcccttcttttctt  CT-rich tract
                            ttttcttttgtttaat  TA-rich tract