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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaatctagttgatattattcaacatgagaatagtggactcctgattttaggaagagaaacttaaagttattatttctctctgtttaatt...

Basic information

species Oryza sativa
transcript LOC_Os06g43860.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g43860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G055243_T01 (Zea mays), 5'ss of exon 2
TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaatctagtt-gatattattcaacatgagaatagtggactcctgattttaggaagagaaacttaaagtt--attatttctctctgtttaatt-
||||| |||||||||||||| ||||| ||||||||||||||||||||||||||||| |||||||| ||||| || |||||||||||||| |||||||||||||||   ||    |||| ||  ||||| ||  |    |      | |   ||   |||| |     |   ||| | ||   | ||   ||| ||  |||||  
TGTTCATTCAAGGAACAACTCCAGCAGCATGTGCGTGTTCATGCAATGGAAGCAGTCATGGCTTGTTGGGAGCTCGAACAAACTTTACAAAGCCTTACAGgtagc-tgaagctttctactttaatatttttagaggaaaatgctttagctgcccctttttggagtctg---cttgatgtacaagtacaactccctacttaatat

upper sequence: LOC_Os06g43860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA17G32980.1 (Glycine max), 5'ss of exon 2
TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaa----tctagttgatattattcaacatgagaata-----gtggactcctgatttta-ggaagagaaacttaaagttattatttctctctgtttaatt
||||| ||||| |||||| | || || ||||| || || |||||||||||||||||||||||||| |||||  | || ||| | || ||||| || |||||| ||||| |||      |||  | |  ||| |   |  | | ||||     |  || |  |    | |  |||   ||| || ||  ||  || | || |         
TGTTCCTTCAAAGAACAATTGCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGAGTTAGAGCAATCATTGCAGAGTCTAACAGgt-gcacagaaagtgtcttcttttagtaattgtcgcatcttaaaataaatgggaagatttgttgcgtgatagaatgaaaaattgaaaatagcatgtttcgc---------

upper sequence: LOC_Os06g43860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA06G06890.1 (Glycine max), 5'ss of exon 2
TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaatctagttgat-attattcaacatgagaatagtggactcctgattttaggaagagaaacttaaagttattatttctctctgtttaatt-
||||| ||||| |||||||| || || ||||| || || ||||||||||||||||| |||||||| |||||  | || ||| | ||||| ||  | |||||||  || | |   |||  ||  | ||| ||  |  | |  |||        || ||    |  ||     |||  |      | |         || ||| 
TGTTCTTTCAAAGAACAACTTCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTCATGGCTTGTTGGGAGATCGAGCAATCCTTACAAAGTTTAACAGgtacaacgatag--tctttttagtgatttttgcatctcaacataaaaataaactaataaaggttagttgcccttccatgataaaatggaaataacttgattc

upper sequence: LOC_Os06g43860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA04G06810.1 (Glycine max), 5'ss of exon 3
TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaatct-----agttgatattattcaacatgagaatagtggactcctgattt-taggaagagaaacttaaagttattatttctctctgtttaatt
||||| ||||| |||||||| || || ||||| || || ||||||||||||||||| |||||||| |||||  |||| ||| | ||||| ||  | |||||||   | | |   | |       ||| ||    ||||||| | ||||    | |   | ||  |   | || ||| |  || | | ||        ||       
TGTTCTTTCAAAGAACAACTTCAACAGCATGTCCGGGTCCATGCAATGGAAGCAGTCATGGCTTGTTGGGAGATTGAGCAATCCTTACAAAGTTTAACAGgtacagcgatattctttttagtgattgttacatctcaacataaaaataaaccaataaaggttggttacatgataaaatggaaatcagtaccagaaaatga------

upper sequence: LOC_Os06g43860.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA14G13750.2 (Glycine max), 5'ss of exon 2
TGTTCGTTCAAGGAACAACTACAGCAACATGTGCGTGTTCATGCAATGGAAGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaaaaaatctagtt---gatattattcaacatgagaata---gtggactcctgattttag---gaagagaaacttaaagttattatttctctctgtttaatt
||||| ||||| |||||| | ||||| ||||| || || |||||||||||||||||||||||||| |||||  | || ||| | || ||||| || |||||| ||| ||||   |||  ||   |  ||| |   |  | | ||||   ||| |    || |    |   |||   ||| || ||  ||  || | || |         
TGTTCCTTCAAAGAACAATTGCAGCAGCATGTCCGGGTCCATGCAATGGAAGCAGTAATGGCTTGTTGGGATATAGAGCAATCATTGCAGAGTCTAACAGgt-gcataaaagtgtcttcttttagtaattgtctcatcttaaaataaatgtgaagatttgttgcgtgattgaatgaaaaattgaaaataggatgtttcaca--------

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|23514961|gb|BU673870.1|BU673870
EST:     A-CAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAG                         GGGCATCTCCTGGTAAAGGTTCTGGAGCAACTATGTCTGATGACGAAGACA
genomic: AGCAGTAATGGCTTGCTGGGAACTTGAACAAACTTTACAGAGCCTTACAGgtagcacaaa ... cttactgcagGGGCATCTCCTCGTGAAGGTTCTGGAGCAACTATGTCTGATGACGAAGACA