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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgggctttattttaatggaagacaaacttgtgttttttttctgagtaaaactatagaactgatcgatacgagtgcattttgtgtttttgtgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAATTTTACAAAA

Basic information

species Oryza sativa
transcript LOC_Os02g15970.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g15970.3 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM5G819212_T01 (Zea mays), 3'ss of exon 2
----------------------------------------------------------------------------------------ttgggctttattttaatggaagacaaacttgtgttttttttctgagtaaaactatagaactgatcgatacgagtgcattttgtgttt-ttgtgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAATTTTACAAAA
                                                                                         |||  |  |  ||  |    || ||  | ||  |||||||| |  ||   ||  | ||| |  |     || | |||| ||||  | |||||||| | || |||||||||||| || || ||||||||  ||||||||||||||||||||||||||||| 
gtcagtgtagtggcatcagatctggaattctcagaaatggttatcttatctcatgatttctttaagcacttggtttttttagaagatagtggattgaacattgtttcttga-aatttagttgtttttttccgtatacttctcca-aacagGCCTGCTTGACTACATTATGTGCATATTGTGATTCTCAGCAGAGGAAGTCAAAGATTTTGGAGTCAATATGGCACTATCCATGCTAAAATTTTACAAAC
















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|30227684|gb|CB965576.1|CB965576
EST:     GAACAAGAGAAGGATCCTAACGATGCGAATCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|426017|gb|D22705.1|D22705
EST:     GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAG                         A-G-G-AAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|33687072|gb|CF315311.1|CF315311
EST:     GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|86499914|gb|CI142547.1|CI142547
EST:     GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
EST: gi|30227453|gb|CB965345.1|CB965345
EST:     GAACAAGAGAAGGATCCTAACGATGCGAATCTACTGCGCTGCTGATGAAG                         AAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT
genomic: GAACAAGAGAAGGATCCTAACGATGCGAGTCTACTGCGCTGCTGATGAAGgttagtctaa ... tgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaaactatagaactgatcgatacgagtgcattttgtgtttttgtgattttaagAAGAGGAAGTCAATGACTTGGGAGTCAACGTGGCACTATCCATGCTAAAATTTTACAAAA
            aactgat  putative branch site (score: 3)
                                       tttttgt  putative PPT
                                       tttttgtgattttaa  TA-rich tract