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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGTTTACATTTCTTATCTTCCTCTTGCCCATATCTTTGACCGTGTACTTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGAgtaagaatgaaaaactcactgtttaatacttgttactttattgtttgagaaatgcttgttattattttctgaaaatcacttgacattttatttcatgtaaaagtagcatgtttgacaagtgtatgttttgtctcag

Basic information

species Oryza sativa
transcript LOC_Os01g48910.2
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g48910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G152127_T01 (Zea mays), 5'ss of exon 10
TGATGTTTACATTTCTTATCTTCCTCTTGCCCATATCTTTGACCGTGTACTTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGAgtaagaatgaaaaactcactgtttaatacttgttactttattgtttgagaaatgcttgttattattttctgaaaatcacttgacattttatttcatgtaaaagtagcatgtttgacaagtgtatgttttgtctcag
||| ||||||||||| |||||||| ||||| ||||| |||||||| ||  |||| || ||||||||||  |||||||| |||||||||||||||||||| ||||| ||  ||||  || |||   | |||  |||||  | | | |         || ||||||       | ||  ||      ||||| | |    |||| | | ||                           
TGACGTTTACATTTCCTATCTTCCGCTTGCTCATATATTTGACCGGGTGATTGAAGAGGTGTTCATTCGTCATGGTGCTTCAATTGGATTTTGGCGTGGGgtaaggatacaaaataca-tgtcctacact-attactc-actatct---------tttttattagca--caacaacaacaaagtcttttagtcctaagaaaattggaatagcaa----------------------

upper sequence: LOC_Os01g48910.2 (Oryza sativa), 5'ss of exon 10
lower sequence: AT4G23850.1 (Arabidopsis thaliana), 5'ss of exon 10
TGATGTTTACATTTCTTATCTTCCTCTTGCCCATATCTTTGACCGTGTACTTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGAgtaag---aatgaaaaactcactgtttaa--tacttgttactttattgtttgagaaatgcttgttattattttctgaaaatcacttgacattttatttcatgtaaaagtagcatgtttgacaagtgtatgttttgtctcag
 ||||| ||  |||||||||||||||||||||| ||||||||||| ||  | |||||    |||||||| ||||||||  ||||||| || ||||| || || ||   | |   || ||   | |||||   | || | | ||  |   ||   |    ||     || | | || |                                                                
AGATGTGTATCTTTCTTATCTTCCTCTTGCCCACATCTTTGACCGAGTTATCGAGGAGTGTTTCATTCAACATGGTGCTGCAATTGGCTTCTGGCGAGGGgtcagtagagtttgaacctttttatttaaaccagttttgaattcctcacttataattctctccgggttgtctcctcag---------------------------------------------------------------
















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|29616395|gb|CB621407.1|CB621407
EST:     TTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGA                         GATGTCAAACTCTTGGTTGAAGACATTGGAGAACTCAAGCCAACAATTTTC
genomic: TTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGAgtaagaatga ... tttgtctcagGATGTCAAACTCTTGGTTGAAGACATTGGAGAACTCAAGCCAACAATTTTC
EST: gi|29617787|gb|CB622799.1|CB622799
EST:     TTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGA                         GATGTCAAACTCTTGGTTGAAGACATTGGAGAACTCAAGCCAACAATTTTC
genomic: TTGAGGAAGTGTTCATTCACCATGGTGCATCAATTGGATTTTGGCGTGGAgtaagaatga ... tttgtctcagGATGTCAAACTCTTGGTTGAAGACATTGGAGAACTCAAGCCAACAATTTTC