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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttaggaccagactatttatactgcagaagccatcccactatatgttgatgcatgttcctgacttgtcacgttgttatgaaaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCAAGGATATCAGATAAGGCCCTGAATTTACCATTATACGCCAAGTATAAAG

Basic information

species Oryza sativa
transcript LOC_Os10g32730.2
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os10g32730.2 (Oryza sativa), 3'ss of exon 10
lower sequence: GRMZM2G027115_T02 (Zea mays), 3'ss of exon 10
gtaatttaggaccagactatttata-ctgcagaagccatcccactatatgttgatgcatgttcctgacttgtcacgttgt--tatgaaaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCAAGGATATCAGATAAGGCCCTGAATTTACCATTATACGCCAAGTATAAAG
|||||| ||  | |    ||||| | | ||   | |  || || |        |||||||| |||||||||   ||   |  | |  |||| |  |||||||||||||||| || ||||||||||||||||| ||||||||||||| |||  || |||| ||||| ||  |  | ||| | || |||||||| ||||
gtaattgagtgctaa---atttacagcagctacaactgtctcagtgagctggaatgcatgtgcctgacttgcggcggcatggttttgaaattctcagGCCAACTTTCCTTCGCTCGAGAGCTTGATAGAGAGAATTCACGAGGATGGAAGAGTAGCAGAGAAGGCACTAGACCTGCCAATGTATGCCAAGTACAAAG
















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|27576586|gb|CA999280.1|CA999280
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29623339|gb|CB628350.1|CB628350
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCTCTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|58613263|gb|CK040975.1|CK040975
EST:     TGTTATTGTGGGTAACATACGACCCGAG                         GCCAACTTTCCTTCTCTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|89172764|gb|CI022643.1|CI022643
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|33689645|gb|CF317884.1|CF317884
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCTTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|86488009|gb|CI130642.1|CI130642
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|109713021|gb|CI105629.1|CI105629
EST:     TTATTGTGGGTTACATACGACCCGAG                         GCCAACTGTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29613709|gb|CB618722.1|CB618722
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCTCTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29631921|gb|CB636930.1|CB636930
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|86500552|gb|CI143185.1|CI143185
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29658983|gb|CB655258.1|CB655258
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29679505|gb|CB675780.1|CB675780
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29671820|gb|CB668095.1|CB668095
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29684882|gb|CB681157.1|CB681157
EST:     TTTACGGAGAGGAACTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|88907995|gb|CI090591.1|CI090591
EST:     ATACGACCCGAG                         GCCAACTGTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: ATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|86861088|gb|CI326597.1|CI326597
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29625607|gb|CB630618.1|CB630618
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCTCTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|33680484|gb|CF308723.1|CF308723
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
EST: gi|29629325|gb|CB634336.1|CB634336
EST:     TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAG                         GCCAACTTTCCTTCTCTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA
genomic: TTTACGGAGAGGAGCTGCGCCTTGTTATTGTTGGTTACATACGACCCGAGgtaatttagg ... aaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccactatatgttgatgcatgttcctgacttgtcacgttgttatgaaaatgcctagGCCAACTTTCCTTCACTTGAGAGCTTGATAGAGAGGATTCACGAGGATGCAAGGATATCAGATAAGGCCCTGAATTTACCATTATACGCCAAGTATAAAG
                     tcctgac  putative branch site (score: 2)
                                       ttatgaaaat  TA-rich tract