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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCGGAAACTGGAGCTCAAAGTTATTTGCAGTAGCCTTGTTGGCGTCTGGCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcacatcttgtactgaagtcctaactttcaactaggaattttagtggtagaccaatatcttgttgtataattacccacggaggtattcatagtta...

Basic information

species Oryza sativa
transcript LOC_Os06g46310.3
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GRMZM2G069198_T02 (Zea mays), 5'ss of exon 11
CCTCGGAAACTGGAGCTCAAAGTTATTTGCAGTAGCCTTGTTGGCGTCTGGCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcacatcttgtactgaagtcctaactttcaactaggaattttagtggtagaccaatatcttgttgtataattacccacggaggtattcatagtta--------
||| |||||||||||||||||||| |||||||| || |||||||| ||||| ||||||||||||||||| || || ||||| ||||||||||||||||||||| |    | ||| |||   | | |  | ||  |  | | || || | ||| ||     | |  || || ||| |||| |   |||| |||    |||         
CCTTGGAAACTGGAGCTCAAAGTTGTTTGCAGTTGCTTTGTTGGCATCTGGTCAGAGTTCTACAATTACGGGGACATATGCTGGACAATATGTCATGCAGgtt-tttggaacttataccttatttc--agttctagttcgcaagttgaatggcaggttg-ttttatgatgcata-ttactc---gaggcatttgatgttgatcagaag

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA15G00590.1 (Glycine max), 5'ss of exon 10
CCTCGGAAACTGGAGCTCAAAGTTATTTGCAGTAGCCTTGTTGGCGTCTGGCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcacatcttgtactgaagtcctaactttcaactaggaattttagtggtagaccaatatcttgttgtataattacccacggaggtattcatagtta--------
| | || || |||||||||||  |||||| | | || ||| | || || || || |||||||| ||||||||||| || || ||||| ||||||||||||||  |       ||||  ||| |   |   ||| |  ||    | |   |   | |  ||||  || |  |   ||   |    ||   |  ||  |||         
CTTGGGGAAATGGAGCTCAAAACTATTTGGAATTGCTTTGCTTGCATCGGGTCAAAGTTCTACTATTACAGGAACCTACGCAGGACAGTATGTCATGCAGgtagt-------ttgt-ttgatggatttttttttacatatttttctgcataaaaaaataatacattatgtttacatcttcactagaaagaaccactgttgattttggc

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA13G44710.1 (Glycine max), 5'ss of exon 9
CCTCGGAAACTGGAGCTCAAAGTTATTTGCAGTAGCCTTGTTGGCGTCTGGCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcacatcttgtactgaagtcc-taactttcaac-taggaattttagtggtagaccaatatcttgttgtataattacccacggaggtattcatagtta
| | || || ||||| |||||| | |||| | | || ||||| || || || || |||||||| ||||||||||| ||||| ||||| ||||||||||||||  |     |  || | |    | | ||  ||||  | ||  || |       ||     | |||||       ||  |||   |  | | || | | |  
CTTGGGGAAATGGAGTTCAAAGCTGTTTGGAATTGCTTTGTTTGCATCGGGTCAAAGTTCTACTATTACAGGAACCTATGCAGGACAGTATGTCATGCAGgtagtttgttttatggatttttttacatatttttctgcataaaaaataatacattatgtttacatcttcactagaaagaaccactgttgatcttgacaat--

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA07G02680.1 (Glycine max), 5'ss of exon 9
CCTCGGAAACTGGAGCTCAAAGTTATTTGCAGTAGCCTTGTTGGCGTCTGGCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgt-tatgcacatcttgtactgaagtcctaactttcaactaggaattttagtggtagaccaatatcttgttgtataattacccacggaggtattcatag-tta-
| | || || |||||||||||  |||||||| | || ||  | || || || || |||||||| || |||||||| ||||| |||||||| ||||||||||| ||     | ||    |        |||   | |  ||  | |||   |   | |   || |||| | ||    ||    | | | | || ||||| ||| 
CTTGGGCAAATGGAGCTCAAAACTATTTGCAATTGCTTTACTTGCCTCAGGTCAAAGTTCTACCATAACAGGAACATATGCAGGACAATACGTCATGCAGgtatactgctagctccacccttcaaattaatacttatttattagtttgcataaaaaat--atttcttttggtcatgttcattatg-atgaatccatagattag

upper sequence: LOC_Os06g46310.3 (Oryza sativa), 5'ss of exon 10
lower sequence: GLYMA08G23320.1 (Glycine max), 5'ss of exon 11
CCTCGGAAACTGGAGCTCAAAGTTATTTGCAGTAGCCTTGTTGGCGTCTGGCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcacatcttgtactgaagtcctaactttcaactaggaattttagtg-gtagaccaatatcttgttgtataattacccacggaggtattcatag-tta---
| | || || ||||| |||||  |||||||| | || ||  | || || || || |||||||| || |||||||| ||||| || ||||||||||||||||| || |   |    | || || |  |||   | |  ||   ||||   ||  || |  | ||  |||    ||  | |       | | || ||||| |||   
CTTGGGCAAATGGAGTTCAAAACTATTTGCAATTGCTTTACTTGCCTCAGGTCAAAGTTCTACTATAACAGGAACATATGCAGGGCAATATGTCATGCAGgt-ataccgcttccctcctcaaat--taatgcttatttatttatttgtttgcataaaagagtactttgggtcatgttcattat--aatgaatccatagattagtt

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|25802710|gb|CA758671.1|CA758671
EST:     GCCAGAGTCCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAG                         GGGTTTCTAGATCTTCGGATGACACCCTGGATACGGAACCTTCTAACTAGG
genomic: GCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcaca ... cttcatttagGGGTTTCTAGATCTTCGGATGACACCCTGGATACGGAACCTTCTAACTAGG
EST: gi|28298205|gb|CB238435.1|CB238435
EST:     GCCAGAGTTCTACAATTACAGGAACTTATGCGGGGCAATATGTCATGCAG                         GGGTTTCTAGATCTTCGGATGACACCCTGGATACGGAACCTTCTAGCTAGG
genomic: GCCAGAGTTCTACAATTACAGGAACTTATGCGGGACAATATGTCATGCAGgttatgcaca ... cttcatttagGGGTTTCTAGATCTTCGGATGACACCCTGGATACGGAACCTTCTAACTAGG