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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGCCTCTAAAGTTGGATTTTGTCATAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAGgtaagtttgtatggtacaaacatgaaacatgtgctttgatttcctggtagtccggttacatctcaggcatcattcggctaatttgtgcctaacatgttaa...

Basic information

species Oryza sativa
transcript LOC_Os06g49990.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G116434_T01 (Zea mays), 5'ss of exon 3
GAGCCTCTAAAGTTGGATTTTGTCATAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAGgtaagtttgta-tggta-caaacatgaaacatgtgctttgatttcctggtagtccggttacatctcaggcatcattcggctaatttgtgcctaacatgttaa-----
|||||||| ||| |||| |||||||| |||||||| |||||||| || ||||| ||||| ||||||||||| |||||| | | |   | ||| | |   |   |||| |  |  |||||       || |||  |   |  | ||   |||  |    |  |||   |  |  | |      
GAGCCTCTCAAGCTGGACTTTGTCATTAGCTTTCCGGACCATGGATTTCACCTACGCTTTGATCCTTGGTCCCAGgtatgctcgggctagtagctagtttattacat-tattaggatttt------gttcggacatcgccaatgctgaattgaggatgtacgtggagattaactaagactag

upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA11G07910.1 (Glycine max), 5'ss of exon 3
GAGCCTCTAAAGTTGGATTTTGTCATAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAGgtaa-gtttgtatggtacaaacatgaaacatgtgctttgatttcctggtagtccggttacatctcaggcatcattcggct-aatttgtgcctaacatgttaa--
|| || || ||||||||| |||| || ||||||||||| ||||| ||||| || ||||| ||||| ||||| |||||   || | | |    ||  |||    | |    | |    ||||     |  ||  | | ||   |  | || ||  | | || |||       |||| |  
GAACCCCTGAAGTTGGATGTTGTTATTAGCTTTCCTGATCATGGCTTCCATCTTCGCTTTGATCCGTGGTCTCAGgtgttgtattttttccccattcatcttgcttccaatgtagagtcctta---tttggagaaagcttgag-gtgatgcgtttcagttagtgaagtttttgtttaga

upper sequence: LOC_Os06g49990.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA01G37380.1 (Glycine max), 5'ss of exon 3
GAGCCTCTAAAGTTGGATTTTGTCATAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAGgtaa-gtttgtatggtacaaacatgaaacatgtgctttgatttcctggtagtccggttacatctcaggcatcattcggct-aatttgtgcctaacatgttaa--
|| || || ||||||||| |||| || ||||||||||| ||||| ||||| || || |||||||| ||||| |||||   || | | |  | |   |||      |    | |    ||||     |   |  | | ||   | || ||  |  | |  | |||       |||| |  
GAACCCCTGAAGTTGGATATTGTTATTAGCTTTCCTGATCATGGATTCCATCTTCGTTTCGATCCGTGGTCTCAGgtgttgtattttttttcccttcatcttgtttacaatgtagagtcctta---tttagagaaagcttgag-attatgtgttttaggtagtgaagtttttgtttaga

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|11442702|gb|BF430605.1|BF430605
EST:     TAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAG                         AGGCTTCGTCTCATTGAGATCTATGACGTGAAAAGACTGCAACTGCGATAT
genomic: TAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAGgtaagtttgt ... ccccttacagAGGCTTCGTCTCATTGAGATCTATGACGTGAAAAGACTGCAACTGCGATAT
EST: gi|33675671|gb|CF303910.1|CF303910
EST:     TAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAG                         AGGCTTCGTCTCATTGAGATCTATGACGTGAAAAGACTGCAACTGCGATAT
genomic: TAAGCTTTCCTGACCATGGGTTCCACCTGCGCTTCGATCCTTGGTCACAGgtaagtttgt ... ccccttacagAGGCTTCGTCTCATTGAGATCTATGACGTGAAAAGACTGCAACTGCGATAT