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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtaatgatctcagtatttttgtacagttacgcagcttggcttatatatggtgtagaaacatcaatcttgttcattgcttccttattataatgtttatttttcatttcattgaagatctcatttcaatttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG

Basic information

species Oryza sativa
transcript LOC_Os03g49420.1
intron # 17
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g49420.1 (Oryza sativa), 3'ss of exon 17
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 17
gtaagtaatgatctcagtatttttgtacagttacgcagcttggcttatatatggtgtagaaacatcaatcttgttcattgcttccttattataatgtttatttttca--tttcattgaagatctcatttcaatttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG
|||||||||   | || | | ||| | |||    |  ||||  | |  | ||     |  |    | ||| | |  | | ||   ||||| | | |||| |||  ||  | | |||         | |  |  ||   |||||| || |||||||||||||||||||| || |||||||||||||||||||| ||| ||||||| |||
gtaagtaattcccacaatttgtttctgcaga---gttgcttttcctg-agattaaccaatactccctatcatctagacttctgttttatt-tcacgtttctttaacagctattattttttcgtgtaatcaacgttcaacagGTCTGAGAGGGAGCTTTTGGGTCATAATAATCAGTATCTTCCAAAGATTGTGTCTGTTTTTGCAGAG
















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|88849788|gb|CI001494.1|CI001494
EST:     ACGATGCTTGAGAA                         GTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCCAAGATTGT
genomic: ACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
EST: gi|86597066|gb|CI272661.1|CI272661
EST:     GAACGACTCTGTACGATGCTTGAGAA                         GTCAGATAGGGAGCTTTTGGGTCATAACCACCAGTATCTTCCAAAGATTGT
genomic: GAACAACTCTGTACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
EST: gi|29629841|gb|CB634850.1|CB634850
EST:     TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAA                         GTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
genomic: TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
EST: gi|27576974|gb|CA999668.1|CA999668
EST:     TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAA                         GTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
genomic: TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
EST: gi|29629241|gb|CB634252.1|CB634252
EST:     TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAG-A                         ---A-ATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
genomic: TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
EST: gi|29679232|gb|CB675507.1|CB675507
EST:     TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAA                         GTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
genomic: TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
EST: gi|29681491|gb|CB677766.1|CB677766
EST:     TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAA                         GTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT
genomic: TTAATCGAGGCCAAGATAGTTCATGAACAACTCTGTACGATGCTTGAGAAgtaagtaatg ... atttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttattataatgtttatttttcatttcattgaagatctcatttcaatttttgcagGTCAGATAGGGAGCTTTTGGGTCATAACAACCAGTATCTTCCAAAGATTGTCTCTATTTTTGCGGAG
                                              tttttgc  CT-rich tract
     tataatgtttattttt  TA-rich tract