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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacatgtgcatcaagaaggcttcctttcatgttttggatggtcagaatttaatattgaattactaactttgtcag

Basic information

species Oryza sativa
transcript LOC_Os01g62080.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 5
CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacatgtgcatcaagaaggcttcctttca--tgttttggatggtcagaatttaatattgaattactaactttgtcag
 ||||||||||||||||| ||||||||||||||||||||||| ||||||||||||  || ||| |||||||||||    || |  |||||| |||| ||||  | | ||||||||||  | |  |  ||||
TTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATTTGTATAgtaagtgaatatgcgtcaagaaggctatactttacttgtttttgatgatcaggttatgatattgaattgatgatctcttcag

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA03G33100.1 (Glycine max), 5'ss of exon 5
CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacatgtgcatcaagaaggcttcctttcatgttttggatggtcagaatttaatattgaattactaactttgtcag----------------------------------
 ||||||||||||||||||||||||||||||||||||||||| ||||| |||||||  | |  ||         ||  ||  |||    | |||   |     | ||  | || || |   |  || |                                   
TTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATTTGTATTgtaagtatttattgatatttgtaatttaattaaatgacaggaatgtctattcaatcatgcttaaatattctgtgagttaaaaaacttgcggatggatttaaatggtttcaacag

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA19G35800.1 (Glycine max), 5'ss of exon 3
CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacatgtgcatcaagaaggcttcctttcatgt-----tttggatggtca---gaatttaatattgaattactaactttgtcag----------
 |||||||| |||||||||||||||||||||| ||||||||| ||||| |||||||  | |  ||         ||  ||  |||      | || ||  |||   || || || |     |   |   |||    |          
TTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATTgtaagtatttattgatatttgtaatttgattaaatgaaggaatgtgcattatcatgcgagttgaaaaacttgtggatggatttaaatggtttcaacag

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: AT3G53570.4 (Arabidopsis thaliana), 5'ss of exon 7
CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtac----atgtgcatcaagaaggcttcct-------ttcatgttttggatggtcagaatttaatattgaattactaactttgtcag----------------------
 ||||||||||||||||||||||||||||||||||||||||| ||||| |||||| |    |  |  ||     | | ||          | ||  || |  | |  || ||| | || |    | |   |  |||                          
TTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATTTGTATTgtaagtgctgttacctttatttgacaagtttgaggggaaaatgcaatttcttcacgccca-aatgttatgtgagttaaaagaacttgcgcatgggtttaaatggtttcaacag

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 5'ss of exon 5
CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacatgtgcatcaagaaggcttcctttcatgttttggatggtcagaatttaatattgaattactaa---ctttgtcag-------------------------------------
 ||||||||||||||||||||||||||||||||||||||||| ||||| |||||||  | |     |     | ||   |||||   ||| | || ||     |  | ||   |  ||||    | ||| ||                                     
TTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATTTGTATTgtaagtatttat-tggtacttgtgatttgattcat---ttgaaggggcaatccatgttgttttgtgcctaaatattctgtgagttaaaaacttgcggatggatttaaatggtttgagcag

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|117243444|gb|CT848361.1|CT848361
EST:     CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA                         GTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
genomic: CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacat ... actttgtcagGTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
EST: gi|58654607|gb|CK043287.1|CK043287
EST:     CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA                         GTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
genomic: CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacat ... actttgtcagGTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
EST: gi|29665089|gb|CB661364.1|CB661364
EST:     CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA                         GTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
genomic: CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacat ... actttgtcagGTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
EST: gi|29679261|gb|CB675536.1|CB675536
EST:     CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA                         GTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT
genomic: CTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATAgtaagtacat ... actttgtcagGTATTTGAGAGGCTCGGACCAAGCTTATATGACTTCCTCCGAAAGAATAGT