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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acgtctctagggagaatattgatagtcctccatgaaatttggatacattagttgttatattctctagtcacaattataaccattatttttctatctctagGATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTTTCTTGGGGCCTTAAG

Basic information

species Oryza sativa
transcript LOC_Os08g40530.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g40530.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G132712_T03 (Zea mays), 3'ss of exon 19
acgtctctagggagaatattgatagtcctccatgaaatttggatacattagttgttatattctctagtc--acaattat--aaccattatttttctatctctagGATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTTTCTTGGGGCCTTAAG
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---agtctaagggcgctattaaaaatcatccagagtactcgtcttt-tcaatcgacaacttgccatgttcgacaatttttcatccattctttttctttatacagGATGGGGGAGCAGCTGAACTTACTGGTTCGCCTACTGAAAAGGCCATTCTTTCTTGGGGCCTTAAG
















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|29636898|gb|CB641907.1|CB641907
EST:     TTATTGAAGGAATAGCACAAAACACAACTGGAACTATTTTTGTGCCAGAG                         GATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTT
genomic: TTATTGAAGGAATAGCACAAAACACAACTGGAACTATTTTTGTGCCAGAGgtatagaagg ... ctatctctagGATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTT
EST: gi|29636809|gb|CB641818.1|CB641818
EST:     TTATTGAAGGAATAGCACAAAACACAACTGGAACTATTTTTGTGCCAGAG                         GATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTT
genomic: TTATTGAAGGAATAGCACAAAACACAACTGGAACTATTTTTGTGCCAGAGgtatagaagg ... ctatctctagGATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTT
EST: gi|4715537|gb|AU056653.1|AU056653
EST:     TTATTGAAGGAATAGCACAAAACACAACTGGAACTATTTTTGTGCCAGAG                         GATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTT
genomic: TTATTGAAGGAATAGCACAAAACACAACTGGAACTATTTTTGTGCCAGAGgtatagaagg ... ctatctctagGATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattagttgttatattctctagtcacaattataaccattatttttctatctctagGATGGGGGAGATGCTGAACTTTCAGGATCGCCAACTGAAAAGGCTATTCTTTCTTGGGGCCTTAAG
                            ttataac  putative branch site (score: 2)
                                     ttatttttctatctct  putative PPT
                          aattataaccattatt  TA-rich tract