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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACCTGGTGAAGCTGCTGGGCTACTGCTGCGAGGACGAGGAGCGCCTCCTCGTCTACGAGTTCATGCCGCGCGGCAGCCTCGAGAACCACCTCTTCAAGAgtacgcacttagctatagctagctccggccacatctccgtttccgcgccgccgccgccgccgccgccggcacaaactgaccgattcgatccatgtccatattgtgcag

Basic information

species Oryza sativa
transcript LOC_Os03g24930.2
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g24930.2 (Oryza sativa), 5'ss of exon 1
lower sequence: AC234171.1_FGT001 (Zea mays), 5'ss of exon 1
CACCTGGTGAAGCTGCTGGGCTACTGCTGCGAGGACGAGGAGCGCCTCCTCGTCTACGAGTTCATGCCGCGCGGCAGCCTCGAGAACCACCTCTTCAAGAgtacgcacttagctatagctagctccggccacatctccgtttccgcgccgccgccgccgccgccgccggcacaaactgaccgatt-cgatccatgtccatattgtgcag----------------
   ||||| | |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||| ||||| | |  | |   ||||||||||  ||  | |   | |    ||   |      |   ||   | |  ||  |  ||| | || |    ||   |   || |  |                  
---CTGGTCAGGCTGCTGGGCTACTGCTGCGAGGACGAGGAGCGCCTGCTCGTCTACGAGTTCATGCCGCGCGGCAGCCTCGAGAACCACCTCTTCAGGAGTA-

upper sequence: LOC_Os03g24930.2 (Oryza sativa), 5'ss of exon 1
lower sequence: EFJ35779 (Selaginella moellendorffii), 5'ss of exon 2
CACCTGGTGAAGCTGCTGGGCTACTGCTGCGAGGACGAGGAGCGCCTCCTCGTCTACGAGTTCATGCCGCGCGGCAGCCTCGAGAACCACCTCTTCAAGAgtacgcac-ttagctatagctagctccggccacatc--tccgtttccgcgccgccgccgccgccgccgccggcacaaactgaccgattcgatccatgtccatattgtgcag
 | || ||   | || | |||||||||  |||||| ||  |||| ||||| || |||||||||||||| ||||| ||||||||||| || || || |   ||| ||   | || | |   | |  |    |  | |  | |||   | |      |  |                                                    
AATCTCGTCCGGTTGATTGGCTACTGCGCCGAGGATGATCAGCGGCTCCTTGTTTACGAGTTCATGCCTCGCGGAAGCCTCGAGAATCATCTGTTTAGACgtaagcttgtcagttttctttcgtgctcatccaaccagttcgtgatctctttcttgtag----------------------------------------------------
















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|88409616|gb|CI568906.1|CI568906
EST:     CGTCTACGAGTTCATGCCGCGCGGCAGCCTCGAGAACCACCTCTTCAAGA                         GGATATCGGCGACGGTGCCGTGGGGCACGCGTCTGAAGATCGCCATCGGCG
genomic: CGTCTACGAGTTCATGCCGCGCGGCAGCCTCGAGAACCACCTCTTCAAGAgtacgcactt ... tattgtgcagGGATATCGGCGACGGTGCCGTGGGGCACGCGTCTGAAGATCGCCATCGGCG
EST: gi|55827813|gb|AU057426.2|AU057426
EST:     AACCACCTCTTCAAGA                         GGATATCGGCGACGGTGCCGTGGGGCACGCGTCTGAAGATCGCCATCGGCG
genomic: AACCACCTCTTCAAGAgtacgcactt ... tattgtgcagGGATATCGGCGACGGTGCCGTGGGGCACGCGTCTGAAGATCGCCATCGGCG