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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttagcatttttatatcttttcttctttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttagGCTGAATTCCTAAGGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATATGAAGATACAGAAATTGACGACACACACTCCACAATTTCTTGGATTGCCAA

Basic information

species Oryza sativa
transcript LOC_Os06g48650.3
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g48650.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G099452_T02 (Zea mays), 3'ss of exon 3
------------------gtatttagcatttttatatcttttcttctttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttagGCTGAATTCCTAAGGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATATGAAGATACAGAAATTGACGACACACACTCCACAATTTCTTGGATTGCCAA
                   |  |||| |     || || |||  ||  |    |||   | || || | |||  | |||  ||   ||||   ||||   ||||||| ||| | |||||||| |||||||| |||||||| |||||||| |||||| ||||||||||||| |||||||| || || ||||| ||||||||||
gtatttggagtctcaattctgcttag-aggcacatgtccttttctcgatttcagttcttggttgttgttttgtttcaacgtagtgttctt---ctgtcccagGCTGAGTTCTTGAGGAAAGCGCCAGGAGTTAAGCATGTTGAGAGAGACATGAAGGTACAGAAATTGACTACACACACCCCTCAGTTTCTCGGATTGCCAA

upper sequence: LOC_Os06g48650.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G114394_T02 (Zea mays), 3'ss of exon 3
------------------gtatttagcatttttatatcttttcttctttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttagGCTGAATTCCTAAGGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATATGAAGATACAGAAATTGACGACACACACTCCACAATTTCTTGGATTGCCAA
                   |  |||| |     || || |||   |  |    |||   | || ||||||||  ||||||| |   | |||  |||||  ||||||| ||| | | ||||||||||||||| |||||||| |||||||| |||||| ||||||||||||| |||||||| || || ||||||||||||||||
gtatttggtgtcccgattttgcttag-aggcgcatgtccttttccccatttgagttcttggttgttatcttgtttgaacactg---tgttttgctgtggcagGCTGAGTTCTTGAAGAAAGCCCCAGGAGTTAAGCATGTTGAGAGAGACATGAAGGTACAGAAATTGACTACACACACACCTCAGTTTCTTGGATTGCCAA
















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|58607175|gb|CK035208.1|CK035208
EST:     GTCACCCTTACAG                         GCTGAATTCCTAAGTGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATAT
genomic: GTCACCCTTACAGgtatttagca ... actgtgttagGCTGAATTCCTAAG-GAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctggtttaagattattatcttggctgaacacagcaatctttcactgtgttagGCTGAATTCCTAAGGAAAGCCCCAGGAGTAAAGCATGTGGAGAGAGATATGAAGATACAGAAATTGACGACACACACTCCACAATTTCTTGGATTGCCAA
                                       tctttcact  CT-rich tract
       tttaagattattatct  TA-rich tract