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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACATAAATGTAACCTCTGTTTTGTAGGAAATCATTGACATGTGTGATTATGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccattctccctttcctaatttatatctgatgcccgcttcaaagtatgataacagcagatacttctgatcatattttctctatttggttgagata...

Basic information

species Oryza sativa
transcript LOC_Os09g26880.4
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g26880.4 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G130440_T01 (Zea mays), 5'ss of exon 4
GACATAAATGTAACCTCTGTTTTGTAGGAAATCATTGACATGTGTGATTATGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccattctccctttcctaatttatatctg---atgcccgcttcaaagtatgataacagcagatacttctgatcatattttctctatttggttgagata-
                           |||||||| ||||||||||||||||||||||| ||||||||||| |||||||| ||||| |||||||||||||||||| ||  ||| ||||   | || ||||| |    ||||| |||  ||| ||   || | ||||  |     |  || |||||| ||    | ||   | | 
---------------------------GAAATCATCGACATGTGTGATTATGCTGTGGGGCTAAGTCGCCAACTAAATGGATCCATTATACCATCTGAACgtaagacctgtcttccttaagttatatatattttttcatgccagctgaaaactacattatctgcagtgaaa---gtgcagattttcactgca-gatttgaacat

upper sequence: LOC_Os09g26880.4 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv11s0016g00900.t01 (Vitis vinifera), 5'ss of exon 4
GACATAAATGTAACCTCTGTTTTGTAGGAAATCATTGACATGTGTGATTATGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccattctccctttcctaatttatatctgatgcc-cgcttcaaagtatgataacagcagatacttctgatcatattttctctatttggttgagata
                           |||||  |||| ||||||||||||||||| ||  ||||||| ||  ||||||| ||||||||||| ||||||||| ||| || ||    | |        || ||| ||  |  | |||     |||        | |  ||||      ||||    || |||  |    || 
---------------------------GAAATTGTTGATATGTGTGATTATGCTGTTGGGTTAAGTCGACAAATAAATGGATCCATCATACCTTCTGAACgtgagctcagtcattatattactggccatttcttatttcatgtttctcttgatggcttagtgaaaagcttcaagaattattacagctctttaatgactat-
















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|29668604|gb|CB664879.1|CB664879
EST:     TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG
EST: gi|29670252|gb|CB666527.1|CB666527
EST:     TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG
EST: gi|29673829|gb|CB670104.1|CB670104
EST:     TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG
EST: gi|29670274|gb|CB666549.1|CB666549
EST:     TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG
EST: gi|29668613|gb|CB664888.1|CB664888
EST:     TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG
EST: gi|29668647|gb|CB664922.1|CB664922
EST:     TGCTGTGGGCCTACGTCGCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG
EST: gi|29668563|gb|CB664838.1|CB664838
EST:     TGCTGTGGGCCTAAGTCTCCAGCTAAATGGGTCCATCATACCATCTGAAC                         GCCCGAATCATATGATGATGGAG
genomic: TGCTGTGGGCCTAAGTCGCCAGCTAAATGGGTCCATCATACCATCTGAACgtaagcccat ... tttttttcagGCCCGAATCATATGATGATGGAG