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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGgtatgttagcttaataacaatatttctgaaccatatttattggagcacgagggcattcaatacatatctggacatatttgttttgggttcataaaactgc...

Basic information

species Oryza sativa
transcript LOC_Os01g56630.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56630.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G078576_T01 (Zea mays), 5'ss of exon 8
CTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGgtatgttagc--------ttaataacaatatttctgaaccatatttattggagcacgagggcattcaatacatatctggacatatttgttttgggttcataaaactgc
|||||| ||||||| | | |||||  ||||||||||||||||||||||||||||||||||||||||||| ||  |||||||||||||| ||||||||||||||||||           |||   |  | | |    | |   | |  | |||  |       |||  ||| | || || | | | || | |   |||  |        
CTTAAATGATGAGATCCCAGTTCTGTTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTTCAGGAATACGTCTTGGTTCGAACAGACTTGGATACTTTGgtatgtttttgttcgcctttagggatgaaagtgggtatctgaactgttaggataaatttaatattttatatagatgtgcataaaattttataccgttttt--------

upper sequence: LOC_Os01g56630.2 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G079389_T01 (Zea mays), 5'ss of exon 8
CTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGgtatgttagcttaataacaatatttctgaaccatatttattggagcacgagggcattcaatacatatctggacatatttgttttgggttcataaaactgc-----------
|||||| |||||||||||||||||  ||||||||||||||||| |||||||||| ||||||||||||||||| |||||| |||||||| |||| ||||||||| |||   ||  | ||  ||| | |||||  |   |  |||||     |  |||| |     |   ||||   || || ||||| || |||||||  |           
CTTAAATGATGAGAGCTCGGTTCTGTTGCTCTATTCTTTGGTCTATGGGAACTGCGACTTTCAGGAATATGTCCTGGTTAGAACAGACTTGGACACTTTGgtacgtt---ttgttgaccttatat-tgaactgt---tgctggagtgaatgaacatttag-gtctgaatgga---atatgatttggattaataaaacatctgcacctttta
















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|58684083|gb|CK072770.1|CK072770
EST:     CAGACCTGGATACTTTG                         CTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAG
genomic: CAGACCTGGATACTTTGgtatgttagc ... ttgtgaacagCTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT
EST: gi|29628456|gb|CB633467.1|CB633467
EST:     ACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTG                         CTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT
genomic: ACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGgtatgttagc ... ttgtgaacagCTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT
EST: gi|58693104|gb|CK081791.1|CK081791
EST:     ACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTG                         CTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT
genomic: ACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGgtatgttagc ... ttgtgaacagCTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT
EST: gi|29639051|gb|CB644060.1|CB644060
EST:     ACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTG                         CTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT
genomic: ACTGTGACTTTCAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGgtatgttagc ... ttgtgaacagCTGATGCCTATCTTGGAAATGCTCTACAATGCATCAAGAAAGACCTCCAAT