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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtattgtgctttaaattggcatttacgcttactgcttacattccttcattttcatttatgaacattactctaattactttttgcaatatattcatgtctgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG

Basic information

species Oryza sativa
transcript LOC_Os08g44770.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44770.2 (Oryza sativa), 3'ss of exon 2
lower sequence: GRMZM2G106928_T02 (Zea mays), 3'ss of exon 2
gtaagtattgtgctttaaattggcatttacgcttactgcttacattccttcattttcatt---tatgaacattactctaattactttttgcaatatattcatg----tctgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
                                        |   ||   | || |||| |   | ||  |||||   |  | | |     ||  ||  | |      |   ||||||||||||||||||| |||||||| |||||||||||||| ||||
---------------------------------------gtgagttttgttatcttcaatagctttgggcattaacttcttcattgcaaacatgatgatgacacaatttcattttgcagCACGAGTTTGGTGATACTACCAATGGGTGCATATCGACAG
















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|87015771|gb|CI277729.1|CI277729
EST:     TTACTCCTGGACTTCACGGCTTCCACTTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: TTACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|86529872|gb|CI170078.1|CI170078
EST:     TGAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: TGAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|38478972|gb|CF963105.1|CF963105
EST:     TGAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: TGAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|86425026|gb|CI070123.1|CI070123
EST:     TCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCTACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: TCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|86479222|gb|CI121855.1|CI121855
EST:     CTTCACGGCTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: CTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|86593056|gb|CI255518.1|CI255518
EST:     TACTCCTGGACTTCACGGTTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: TACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|33805978|gb|CF328868.1|CF328868
EST:     GGCTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: GGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|89178504|gb|CI015209.1|CI015209
EST:     TGAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: TGAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
EST: gi|86416925|gb|CI030936.1|CI030936
EST:     GAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTC                         CACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
genomic: GAATGTCCGTGTGACGGGACTTACTCCTGGACTTCACGGCTTCCACCTCgtaagtattg ... tgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatgaacattactctaattactttttgcaatatattcatgtctgttttgcagCACGAGTTTGGCGATACTACGAATGGGTGCATATCAACAG
              ctctaat  putative branch site (score: 3)
                                           tctgtttt  putative PPT
                 taattactttttgcaa  TA-rich tract