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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTATGGATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatcttttgactcttcctaattaatcttgacagttcaatgcagccttttcaattttttaatttgtggccttcttttacag

Basic information

species Oryza sativa
transcript LOC_Os01g10150.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10150.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G045259_T01 (Zea mays), 5'ss of exon 5
GTTATGGATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatcttttgactcttcctaattaatcttgacagtt-caatgcagccttttcaattttttaatttgtggccttcttttacag
||||||||||| |||||||| ||||| ||||||||||||||||| |||||||||||||||| ||||    | ||||   |||||  ||| || ||| | ||     |||| ||||  ||     || |    ||||||||||
GTTATGGATATTTTGGGACCAAGCCTATGGGATGTTTGGAATAATAATTCCCACTCgtgggtatctgcacattctttgcaattacacttcactgtttctatttgatctttccaatcattc---ctgagcttgtcttttacag

upper sequence: LOC_Os01g10150.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA07G01890.1 (Glycine max), 5'ss of exon 5
GTTATGGATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatcttttgactcttcctaat-------------taatcttgacagttcaatgcagccttt--tcaattttttaatttgtggccttcttttacag
|||||||||||| ||||||| ||||| ||||| ||||||||||| |     ||   ||  |   |||   | | |  |  ||             || ||||   |||| | |    | ||   |   | |  |||| |||     |   || |||
GTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCAgtaagt-ccttgaaattatgtcagatatgaataaaattgtattctttgtagttgattttgactttcagttgctgtgctaatgtgtttttctgaattccag

upper sequence: LOC_Os01g10150.2 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA08G21570.1 (Glycine max), 5'ss of exon 5
GTTATGGATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatcttttgactcttcctaat-taatcttgacagttcaat--gcagccttttcaattttttaatt--tgtg---gccttcttttacag-------
|||||||||||| ||||||| ||||| ||||| ||||||||||| |     ||   ||  |   |||   | | |  |  || | |     |  ||  | |  | ||    ||     ||| | ||  ||||     ||  ||||           
GTTATGGATATGCTGGGACCTAGCCTCTGGGACGTTTGGAATAATAGCAATCATCAgtaagt-ccttgaaattatgtcagatatgaatacaattgtatactttgtagttgattttgactttcagttgctgtgctaatctgtttttctgaattccag

upper sequence: LOC_Os01g10150.2 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv04s0008g00160.t01 (Vitis vinifera), 5'ss of exon 5
GTTATGGATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatcttttgactcttcctaat----------taatcttgacagttcaatgcagccttttcaattt--tttaatttgtggccttcttttacag------------
|||||||||||| | ||||| ||  |||||||||||||||||||||| || ||| |||  |  ||||||     |   |             | |||||     ||  ||| | |   | ||||||  | | || |   |  | |||| ||              
GTTATGGATATGCTTGGACCTAGTTTGTGGGATGTTTGGAATAACAACTCACACACgtaagtttctttttcaaatatgtggcggaaagtgtgttatcttttagtttatatgtaacacatgcaatttactcttatctaatgtttactttcactttgtcaatttcag

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|29688778|gb|CB685053.1|CB685053
EST:     GATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTC                         GATGTCTGTTGAGATGGTCGCTTGTATAGGTATAGAGGCCATCTCCATACT
genomic: GATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatct ... tcttttacagGATGTCTGTTGAGATGGTTGCTTGTATAGGTATAGAGGCCATCTCCATACT
EST: gi|29630440|gb|CB635449.1|CB635449
EST:     GATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTC                         GATGTCTGTTGAGATGGTTGCTTGTATAGGTATAGAGGCCATCTCCATACT
genomic: GATATGTTGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatct ... tcttttacagGATGTCTGTTGAGATGGTTGCTTGTATAGGTATAGAGGCCATCTCCATACT
EST: gi|88573975|gb|CI665744.1|CI665744
EST:     TGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTC                         GATGTCTGTTGAGATGGTTGCTTGTATAGGTATAGAGGCCATCTCCATACT
genomic: TGGGACCGAGCCTGTGGGATGTTTGGAATAACAATTCCCACTCgtgggcatct ... tcttttacagGATGTCTGTTGAGATGGTTGCTTGTATAGGTATAGAGGCCATCTCCATACT