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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtgtaatttcttttgctctggcagctggatcttgtccgatcgcctaaactaaacaatggttcggtattatgtaccctactacagGATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTTGGATCGGGTGGGACTACACGGGCTTCTAGTGACACCTCGAGCACCTGCA

Basic information

species Oryza sativa
transcript LOC_Os03g43930.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g43930.2 (Oryza sativa), 3'ss of exon 14
lower sequence: GRMZM2G423337_T01 (Zea mays), 3'ss of exon 7
gttagtgtaatttcttttgctctggcagctggatcttgtccgatcgcctaaactaaacaatggttcggtattatgtaccctactacagGATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTTGGATCGGGTGGGACTACACGGGCTTCTAGTGACACCTCGAGCACCTGCA
||||||   |     ||||  || | ||      ||  || | | | ||||||||| ||||| |   || | |  || |      |||||| ||||||| |  ||||||||||||||||| |||||||| || ||||||||||| |||||||| || || ||||| |||||| |||| ||||||||||
gttagtacgacaggctttgtgcttgtagtattgcct--tctgttggtctaaactaa-caatg-tgttgtgtaac-tatcaactggcagGATCCACCATCAGGCACACGCACACTTGACCTCGCATCTACCCTCGAGGTTGGATCTGGTGGGACAACGCGTGCTTCGAGTGACGCCTCCAGCACCTGCA
















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|218503853|gb|FG970110.1|FG970110
EST:     ACCACTGCTACCCTCAGGCTTCCGTGGTGATACCACTGGATGGCAAGACG                         GATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTT
genomic: ACCACTGCTACCCTCAGGCTTCCGT-GTGATACCACTGGATGGCAAGACGgttagtgtaa ... cctactacagGATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTT
EST: gi|88362295|gb|CI608686.1|CI608686
EST:     CACCACTGCTACCCTCAGGCTTCCGTGTGATACCACTGGATGGCAAGACG                         GATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTT
genomic: CACCACTGCTACCCTCAGGCTTCCGTGTGATACCACTGGATGGCAAGACGgttagtgtaa ... cctactacagGATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttgtccgatcgcctaaactaaacaatggttcggtattatgtaccctactacagGATGCACCATCTGCGACACGCACACTTGACCTGGCATCTACTCTTGAGGTTGGATCGGGTGGGACTACACGGGCTTCTAGTGACACCTCGAGCACCTGCA
                 aactaaa  putative branch site (score: 2)
                                            ccctact  putative PPT
               taaactaaa  TA-rich tract