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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgcttttacataatatatattttctatttcatgagtcatttcaagttacatactgtcaacatttggaattcttttgcag

Basic information

species Oryza sativa
transcript LOC_Os03g02756.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g02756.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G453794_T01 (Zea mays), 5'ss of exon 3
TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgcttttacataatatatattttctatttcatgag--tcatttcaagttacatactgtcaacatttggaa----ttcttttgcag
|||||| || |||||||| |||||||| |||||||| || |||||||| ||||| |||||||||||||| || || || |||||||||||||||||||||| ||| | || | | |  ||||||  |||  | || ||   |   || || |  || ||    |||||||| ||
TGTTTCCTCCCTGGCCTCATTTATGTCTAATCAGGAGACAAGTTTTGTGACATTAGGACAGCGTGTTCTTGCTAACCCGCTGAAgtaagtgcttttacatagtatgttttctgtttcacatgaggatcagctaaaattgtgtgtagttaatacatgaaaccttttcttttgtag

upper sequence: LOC_Os03g02756.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA20G38860.1 (Glycine max), 5'ss of exon 40
TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgc-ttttacataatatatattttctatttcatgagtcatttcaagttacatactgtcaacatttggaattcttttgcag
||| || ||  | || || |||||||||||||| |||||||||||||| || ||||| ||||| ||| | || |||||| |||||||||  | ||||| || | |||    ||     ||| || |||    ||||   | | ||      | |  |            
TGTCTCATCTTTAGCATCATTTATGTCCAATCAAGAAACTAGTTTTGTGACTTTGGGGCAGCGAGTTTTAGCAAATCCATTGAAgtaagcccattttaaattaaataatgatttctcgtcaagattcaaactaagtatgacaatgatgctctattcag-----------

upper sequence: LOC_Os03g02756.1 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA10G44150.2 (Glycine max), 5'ss of exon 38
TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgc-ttttacataatatat--attttctatttcatgagtcatttcaagttacatactgtcaacatttggaattcttttgcag
||| || || || || || |||||||||||||| |||||||||||||| || || || ||||| ||| | || |||||| |||||||||  | ||||| || | |||   ||||  | | ||| || |||    ||||   | | ||      | |  |            
TGTCTCATCTCTAGCGTCATTTATGTCCAATCAAGAAACTAGTTTTGTGACTTTAGGGCAGCGAGTTTTAGCAAATCCATTGAAgtaagcccattttaaattaaataatgatttcttttgtcaagaatcaaactaagtatgacaatgatgctctatttag-----------

upper sequence: LOC_Os03g02756.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv06s0004g01200.t01 (Vitis vinifera), 5'ss of exon 35
TGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgcttttacataatatatattttctatttcatga---gtcatttcaagttacatactgtcaacatttggaattcttttgcag-------
||| |||||  | ||||  |||||||||||||| |||||||| ||||| ||  | || |||||||||||||| || ||  | |||||||| | |||| || |   |     | ||||| |||     |||||| || ||    |          |  ||| |||||   |        
TGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAAgtaagttcattta-attaagcaagcaatttatttgatgtcatatcattttaaatttgggataactggagct--gaaatctttaataatggccag

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|300216075|gb|HO088701.1|HO088701
EST:     GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA                         AGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
genomic: GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgctt ... tcttttgcagAGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
EST: gi|88399969|gb|CI588273.1|CI588273
EST:     GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA                         AGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
genomic: GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgctt ... tcttttgcagAGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
EST: gi|33679231|gb|CF307470.1|CF307470
EST:     GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA                         AGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
genomic: GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgctt ... tcttttgcagAGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
EST: gi|29675246|gb|CB671521.1|CB671521
EST:     GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA                         AGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT
genomic: GAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAAgtaagtgctt ... tcttttgcagAGTAAGAATGCATTATGGCCATCCAGATGTTTTTGATAGAATTTTTCATAT