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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtccacttttaagatttaatgcattgcatctcttttggagtttgtgtataaatattatcgactttatttcctcaactgagtgtgcattccttctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGATATGTGACACAACCACCAAATCTTTCGATATTAACTGAATACCTTCCAA

Basic information

species Oryza sativa
transcript LOC_Os02g12810.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g12810.3 (Oryza sativa), 3'ss of exon 5
lower sequence: GRMZM2G413069_T01 (Zea mays), 3'ss of exon 6
gtgagtccacttttaagatttaatgcattgcatctcttttggagtttgtgtataaatattatcgactttatttcc-tcaactgagtgtgcattccttctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGATATGTGACACAACCACCAAATCTTTCGATATTAACTGAATACCTTCCAA
|| |||  | ||      || ||  ||| |||||||| ||  |  ||| |  |||  ||||| |  ||  ||||| ||| || ||  |  |||  ||   ||  ||||  | |||||||||||||| |||||||| ||||| ||||| ||||||||||||||||||||| | || ||||| || ||||||||||| ||||| ||||
gtaagttaagtt------ttcaacacat-gcatctctgttccaacttgagcttaatgattattgggttcttttccctcagctaagcttatatttgttacattttagGTGAGAATCATGTCAAGGCTAAGGCATCCCAATGTTGTTCTTTTCTTGGGATATGTGACACAATCGCCTAATCTCTCTATATTAACTGAGTACCTCCCAA
















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|33796224|gb|CF323978.1|CF323978
EST:     TCTTGACCAGGATTNTATCGGGTGTTGCACTAGATCAATTCAAATGTGAA                         GTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
genomic: TCTTGACCAGGATT-TATCGGGTGTTGCACTAGATCAATTCAAATGTGAAgtgagtccac ... tctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
EST: gi|29623119|gb|CB628130.1|CB628130
EST:     TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAA                         A
genomic: TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAAgtgagtccac ... tctcttcaag-
EST: gi|29623119|gb|CB628130.1|CB628130
EST:     TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAA                         A
genomic: TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAAgtgagtccac ... tctcttcaag-
EST: gi|86884252|gb|CI311680.1|CI311680
EST:     TATCGGGTGTTGCACTAGATCAATTCAAATGTGAA                         GTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
genomic: TATCGGGTGTTGCACTAGATCAATTCAAATGTGAAgtgagtccac ... tctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
EST: gi|33793152|gb|CF322457.1|CF322457
EST:     TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAA                         GTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
genomic: TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAAgtgagtccac ... tctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
EST: gi|29639858|gb|CB644867.1|CB644867
EST:     TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAA                         GTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA
genomic: TTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAAgtgagtccac ... tctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaatattatcgactttatttcctcaactgagtgtgcattccttctcttcaagGTTGGGATCATGTCAAGGCTGAGGCATCCAAATGTAGTTCTGTTCTTGGGATATGTGACACAACCACCAAATCTTTCGATATTAACTGAATACCTTCCAA
                                    tgcattccttctcttc  CT-rich tract
              actttattt  TA-rich tract