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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgcttttcagAGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTCCTTTGGTAATCATCAATCTCCAG

Basic information

species Oryza sativa
transcript LOC_Os02g31874.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G144254_T06 (Zea mays), 3'ss of exon 4
gtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattatagatttatgaagtttttactctgcttttcagAGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTCCTTTGGTAATCATCAATCTCCAG
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gtatgtatgattctc---------actttctggtagctggaatgaaaattacaat--aactacatggaatcatgtgactatgaagcttctgctattctttccagAGTCATGGTAGCCACAACATTTATAGTCTTTGGCAACATCTTCTTAGTATCCTTTGGCAACCATCAATCACCTG

upper sequence: LOC_Os02g31874.1 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G477146_T01 (Zea mays), 3'ss of exon 5
gtatgcattgttctactttttggaatttttttataaaggaaatgagttccaaacttccaatacttggaattata-gatttatgaagtttttactctgcttttcagAGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTCCTTTGGTAATCATCAATCTCCAG
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gtatgtatgtttctg---------actttctcgtagctggaataaaaatcagaat-----tacatggaatcatgtgattaatgaagattttgctcctctttccagAGTCATGGTAGCCACAACGTTTATTGTCTTTGGCAACATCTTCTTAGTATCCTTCGGCAACCATCAATCGCCTG
















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|58688305|gb|CK076992.1|CK076992
EST:     TCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGAACATTTCAGTGAA                         AGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTC
genomic: TCCAATATTGCATTTGCTTACTTTGTGTTGAACAAGACCATTTCAGTGAAgtatgcattg ... tgcttttcagAGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaacttccaatacttggaattatagatttatgaagtttttactctgcttttcagAGTCATGGTAGCAACAACATTTATTGTATTTGGCAATATCTTCCTAGTTTCCTTTGGTAATCATCAATCTCCAG
                                    tttttactctgctttt  CT-rich tract
 aattatagatttatga  TA-rich tract