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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaataatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag

Basic information

species Oryza sativa
transcript LOC_Os02g47850.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G029573_T01 (Zea mays), 5'ss of exon 4
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaataatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag
 ||||| ||||||||||| |||||||| ||||||||||| |||||||| |||||||| || |||||||| |||||||| ||||||||||||  ||  ||| |||| |     | |    | |||||      |||     | |  ||  |   |  ||  || || ||||||| | |||
CTATCAGGAGATTTTGACCGATCCAAGTTATGCTGGTCAGTTTGTCCTAATGACCAATCCTCATATTGGGAACACTGGCGTTAATCCTGgtttgttacttctctact---tgagagatttaatatgccttt-tttttttgacaattt--agcatgaaatgaagtataatgctcttacag

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G147450_T02 (Zea mays), 5'ss of exon 3
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaataatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag
 ||||| ||||||||||| ||||||||||||||||||||||||||||| |||||||| || |||||||| |||||||| ||||||||||||  || |||| |||| |    || |      ||| |      |||  |||||     ||||  |  ||  || || ||||||  |||||
CTATCAGGAGATTTTGACAGATCCAAGCTATGCTGGTCAATTTGTCCTGATGACCAATCCCCATATTGGTAACACTGGCGTTAATCCTGgtttgtttcttctctact---taagagattcaata-ggcctttttttgacaat-----gtaacatgaaatgaagtataatgct--tgcag

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA04G39390.1 (Glycine max), 5'ss of exon 3
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaat--aatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag-
||||||||| |||||||||||||| || |||||||| || ||||| |||||||| |||||||||||||| || |||||  | |||  ||||  || | |  | | | | ||||   | || |||   ||||   |||    |     ||| ||   |  ||   || |    ||  | |   
GTATCAAGAAATTTTGACTGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAACCCACATATTGGGAATACTGGCATAAATTTTGgttagtgtttactttctaattcaaatgagtcttgaatcgatgtggttt--gaagccatttgaaaaactctac--ttttgttcactttttccag

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA06G15510.1 (Glycine max), 5'ss of exon 3
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatcttttctattagtcaat--aatcatgatatgatgccatttccacaatagcttgtaagttttaacaaattagaatgctcatgcag
||||||||| |||||||| ||||| || |||||||| || ||||| |||||||| || ||||||||||| ||||||||  | |||  ||||  || | | || | | | ||||   | || |||   ||||   ||     |     ||| ||  | |       |  | |  |  | |||
GTATCAAGAAATTTTGACAGATCCTAGTTATGCTGGCCAGTTTGTGCTCATGACAAATCCACATATTGGGAACACTGGCATAAATTTTGgttagtttttattttctaattcaaatgagtcttgaatcgatgtggtt--ggaagccatttgaaaactgtgttttggttcacttttt-tccag

upper sequence: LOC_Os02g47850.3 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA05G32190.1 (Glycine max), 5'ss of exon 3
GTATCAAGAGATTTTGACTGATCCAAGCTATGCTGGTCAATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatct----tttctattagtcaataatcatgatatgatgccatttccacaatagcttgtaagtt--ttaacaaattagaatgctcatgcag----
||||||||| ||| | || ||||| || ||||||||||| ||||| || ||||| || ||||||||||| ||||||||||| |||  ||||  |||| |    ||| ||||| |  | | ||     |  ||    | |    | |    |  ||  |   |    ||||   |||| | | | |    
GTATCAAGAAATTCTAACAGATCCTAGTTATGCTGGTCAGTTTGTACTGATGACAAATCCACATATTGGTAACACTGGTGTAAATTTTGgtaagtatttaatatttatattatttta-agtctcttgaatatttgttcttggaagtcatctaaaacctaccttctgaattctgatgcacctactgccag

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|58656843|gb|CK045523.1|CK045523
EST:     ATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTG                         ATGATGAAGAATCGAATCGATGTTTCCTTGCTGGTCTGATCATAAGGAATC
genomic: ATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatct ... gctcatgcagATGATGAAGAATCGAACCGATGTTTCCTTGCTGGTCTGATCATAAGGAATC
EST: gi|58690939|gb|CK079626.1|CK079626
EST:     ATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTG                         ATGATGAAGAATCGAATCGATGTTTCCTTGCTGGTCTGATCATAAGGAATC
genomic: ATTTGTCCTCATGACCAACCCACATATTGGAAACACTGGTGTTAATCCTGgtccgtatct ... gctcatgcagATGATGAAGAATCGAACCGATGTTTCCTTGCTGGTCTGATCATAAGGAATC
EST: gi|29682715|gb|CB678990.1|CB678990
EST:     ATTGGAAACACTGGCTGTTAATCCTG                         ATGATGAAGAATCGAACCGATGTTTCCTTGCTGGTCTGATCATAAGGAATC
genomic: ATTGGAAACACTGG-TGTTAATCCTGgtccgtatct ... gctcatgcagATGATGAAGAATCGAACCGATGTTTCCTTGCTGGTCTGATCATAAGGAATC