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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatcctcagatttaactgatatatttacctaatttgttctataatttaacattattttgttgaattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTAGAAAGAGTTAAATTGATGCAGCCTCAATCTAGTTCTTGTAATTCAACTG

Basic information

species Oryza sativa
transcript LOC_Os02g57120.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g57120.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G081907_T01 (Zea mays), 3'ss of exon 8
----------------gtatatcctcagatttaactgatat-------atttacctaatttgttctataatttaacatt--attttgttgaattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTAGAAAGAGTTAAATTGATGCAGCCTCAATCTAGTTCTTGTAATTCAACTG---------
                |||| |||| | | ||| ||    |       ||||| |  |  | ||   ||  | | |||   | |   ||   ||   ||||||||||||||||||||| |||||||||  |||  ||||||| ||||         ||||||| | |  || | |||| |||||||||    | || |||         
accacccagacagaaagtatttccttaaacttatcttgcgtcggcgaaatttatcagacatattaattatctaatcatgtaactgcatttttttatgtagATGATAAATGATGAAGATACTGAGACACCTCAAGCGCATCTTCCTCC---------AGTTAAAATAAGTCATCTTCAACCTAGTTCTTTCGTTCCAGCTGTAATAGATA
















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|29625344|gb|CB630355.1|CB630355
EST:     GTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAA                         ATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
genomic: GTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAAgtatatcctc ... aattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
EST: gi|88309000|gb|CI654619.1|CI654619
EST:     CTGAACGTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAA                         ATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
genomic: CTGAACGTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAAgtatatcctc ... aattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
EST: gi|88357958|gb|CI650694.1|CI650694
EST:     CTGAACGTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAA                         ATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
genomic: CTGAACGTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAAgtatatcctc ... aattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
EST: gi|29681059|gb|CB677334.1|CB677334
EST:     CTGAACGTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAA                         ATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA
genomic: CTGAACGTTCGCATCAGTTGTTTTCATCGTTTGAATCATCCAGGCAGAAAgtatatcctc ... aattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatatatttacctaatttgttctataatttaacattattttgttgaattgcatagATGATAAATGATGAAGATGCTGAGACACAGCAAAGGCATCTTTCTCCTGTAGAAAGAGTTAAATTGATGCAGCCTCAATCTAGTTCTTGTAATTCAACTG
                          atttaac  putative branch site (score: 3)
            taatttgttctataat  TA-rich tract