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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACTAGGGTTGTAGAACCATTGCTACCTGATCCACCGTCACGTGCTCTTCCTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagcatttctacacccgtgttgtgctttacaagaaaatattttccttttttttttctaatcctgctcattatgtgtataaccatctttacatat...

Basic information

species Oryza sativa
transcript LOC_Os01g02090.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g02090.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G051622_T02 (Zea mays), 5'ss of exon 4
AACTAGGGTTGTA-GAACCATTGCTACCTGATCCACCGTCACGTGCTCTTCCTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagcatttctacacccgtgttgtgctttacaagaaaatattttccttttttttttctaatcctgctcattatgtgtataaccatctttacatat-----
 || |    ||   || || |||||||| || ||||| ||||   |||| ||||||||||| |||||||||||||||||||| ||||| |||||||| ||||||  |  || ||||||| |  || ||     || ||  |    | |    || |||   |  ||  | | |  || |   | ||||||| |  | || |     
-ACCATTACTGCCTGACCCTTTGCTACCAGACCCACCATCACAGTCTCTGCCTGAAAATAAGGAGCCTATATTGCCATTGCCCAAACAGACACCTCAGAAGgtatgt--gcttttctactcatgtctttgtgcttgcagaagcgaagtagagttgtttcagttgaaaacagttagtttt---tttaaccatgtgcagatgtttcag

upper sequence: LOC_Os01g02090.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G132796_T01 (Zea mays), 5'ss of exon 4
AACTAGGGTTGTA-GAACCATTGCTACCTGATCCACCGTCACGTGCTCTTCCTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagcatttctacacccgtgttgtgctttacaagaaaatattttccttttttttttctaatcctgctcattatgtgtataaccatctttacatat------
 ||      |    || || |||||||| |||||||| ||||| ||| | ||||||| ||| ||||||||||| |||||||||||||| || ||||| ||||||  |  || ||||||| |  || ||     || ||     | ||      |||||   |  ||  | |||  ||     | ||||||| |  | || |      
-ACCGTTACTACCTGACCCTTTGCTACCAGATCCACCATCACGGGCTATGCCTGAAATTAAGGAGCCTATATTACCATTGCCGAAACAGACGCCTCAGAAGgtatgt--gcttttctactcatgtctttgtgcttgcagaggcaaatgaaagatttttaactgaaaaacagctagttt----tttaaccatgtgcagatgtttcagt
















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|4879544|gb|AU063843.1|AU063843
EST:     CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAG                         TACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
genomic: CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagc ... tctttttcagTACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
EST: gi|29670777|gb|CB667052.1|CB667052
EST:     CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAG                         TACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
genomic: CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagc ... tctttttcagTACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
EST: gi|58660599|gb|CK049279.1|CK049279
EST:     CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAG                         TACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
genomic: CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagc ... tctttttcagTACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
EST: gi|13896773|gb|AU183109.1|AU183109
EST:     CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAG                         TACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA
genomic: CTGAAAATAATGAGCCTATATTGCCATTGCCGAAACAAACACCTCAAAAGgtacatcagc ... tctttttcagTACAATGGAGCTGGTTCACACAGCAATCACCACTACAGGGGCCGTGGAAGA