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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaacaaaatatctgtcgatgagaattttgtaacccaaattctatttgtctactgatgttgtataacattttttagGTTTTGATACATAATGTAATGCGCATAGGATCTTCTACGGACATTGAAGCGCAACAAGCCCATGCATTCTCGATTTATCTTGTCCTGCCTTTCTTGACCA

Basic information

species Oryza sativa
transcript LOC_Os07g46640.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g46640.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM5G827205_T02 (Zea mays), 3'ss of exon 5
--------gtatgaacaaaatatctgtcg-atgagaattttgtaa---cccaaattctatttgtctactgatgttgtataacatttttt-agGTTTTGATACATAATGTAATGCGCATAGGATCTTCTACGGACATTGAAGCGCAACAAGCCCATGCATTCTCGATTTATCTTGTCCTGCCTTTCTTGACCA
          ||  ||| ||||| |  |  ||| ||  |   | |        || | | |  | | |||||| ||| |    |||||  |||||||||||||||||||||||||||||| ||||||||| || |||||| | || ||||| |||| |||||| |||||||||||| |||| ||| | ||||
gtattaacagatttacagaatatattccttatgtgatgtacatgaatttttgcataccactcatgtcctgatggtgtgtggtctttttccagGTTTTGATACATAATGTAATGCGCATAGCATCTTCTACAGATATTGAAACTCAGCAAGCTCATGAATTCTCTATTTATCTTGTCTTGCCATTCCTAACCA

upper sequence: LOC_Os07g46640.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G137707_T02 (Zea mays), 3'ss of exon 5
gtatgaacaaaatatctgtcg---atgagaattttgtaacccaaattctatttgtctactgatgttgtataaca------ttttttagGTTTTGATACATAATGTAATGCGCATAGGATCTTCTACGGACATTGAAGCGCAACAAGCCCATGCATTCTCGATTTATCTTGTCCTGCCTTTCTTGACCA
|||| |||||||||| |  |     ||| |    || |      || | | |  | |  || ||  || |          ||||  |||||||||||||||||||||||||||||| ||||||||| || || ||| | || ||||| |||| |||||| |||||||||||| |||| ||| | ||||
gtataaacaaaatatattccttatgtgacatacatgaattttgcataccactcatgtcttgttggcgtgtggttgtggttttttccagGTTTTGATACATAATGTAATGCGCATAGCATCTTCTACAGATATCGAAACTCAGCAAGCTCATGAATTCTCTATTTATCTTGTCTTGCCATTCCTAACCA
















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|38473384|gb|CF957516.1|CF957516
EST:     CTGGCCTGAATGGTCTTGAAGTTGGGCAGACAGTTATTATATCTGCTGCG                         GTTTTGATACATAATGTAATGCGCATAGGATCTTCTACGGACATTGAAGCG
genomic: CTGGCCTGAATGGTCTTGAAGTTGGGCAGACAGTTATTATATCTGCTGCGgtatgaacaa ... cattttttagGTTTTGATACATAATGTAATGCGCATAGGATCTTCTACGGACATTGAAGCG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agaattttgtaacccaaattctatttgtctactgatgttgtataacattttttagGTTTTGATACATAATGTAATGCGCATAGGATCTTCTACGGACATTGAAGCGCAACAAGCCCATGCATTCTCGATTTATCTTGTCCTGCCTTTCTTGACCA
                                             catttttt  CT-rich tract
                                     ttgtataacatttttt  TA-rich tract