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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGCAGATGCTGGCTACCACTGCTTTGCTCCTGATTGGATAGGATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAGgtgtggccgtgtggcaaatgttgacaaaattaatgaatcttactaaactctcatttatattgtatcatgtgcag

Basic information

species Oryza sativa
transcript LOC_Os04g55180.2
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g55180.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G117531_T04 (Zea mays), 5'ss of exon 4
ATGGCAGATGCTGGCTACCACTGCTTTGCTCCTGATTGGATAGGATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAGgtgtggc---cgtgtggcaaa-tgttgacaaaatta-atgaatcttactaaactctcatttat--attgtatcatgtgcag-------------------
||||||||||||||||||||||||||||| ||||| ||||| ||||||||||||||||| |||||||| || ||||||||||||||||  | ||||  ||     ||||   ||| |  || |    ||  || | |   | | || ||   | ||   || |||   |  |||                    
ATGGCAGATGCTGGCTACCACTGCTTTGCACCTGACTGGATCGGATTTGGGTTCAGTGAAATGCCACAACCTGGATATGGATTCGACTTTAAAGgtcaggaaaatgtgtattaaactaatgtcccgtttggatcactagaattgaattccattctaataatagtaatttaggcatatatcaattaagctaattc

upper sequence: LOC_Os04g55180.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA08G22840.1 (Glycine max), 5'ss of exon 4
ATGGCAGATGCTGGCTACCACTGCTTTGCTCCTGATTGGATAGGATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAGgtgtggccgt-gtggcaaatgttgacaaaattaatgaatcttactaaactctcatttatattgta-tcatgtgcag------------------
 || | ||||| || | |||||||||||| ||||| |||||||||||||| |||||||| |  |||||||| |||||||| ||  | ||||||||| |     |     ||  |  |  |   |  | |   |||| |  ||  | |||  |  |  || |||| |||                    
TTGTCGGATGCAGGGTTCCACTGCTTTGCACCTGACTGGATAGGATTTGGTTTCAGTGACAAACCACAGCCAGGATATGGTTTTAATTACACAGgtttcataatcaaaacatcttatatcttgaagattttttcttgcagaaaccccataca-gtcatactcatatgcttttctttcatttctcatag

upper sequence: LOC_Os04g55180.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA07G03260.1 (Glycine max), 5'ss of exon 4
ATGGCAGATGCTGGCTACCACTGCTTTGCTCCTGATTGGATAGGATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAGgtgtggccgt-gtggcaaatgttgacaaaattaatgaatcttactaaactctcatttatat---tgtatcatgtgcag---------
 || | ||||| || | |||||||||||| || || |||||||||||||| |||||||| |  ||||| || |||||||| ||  | ||||||||| |     |     ||  |  |  |   |  |||   |  | |  ||  |||||    ||   ||| |    | ||          
TTGTCGGATGCCGGGTTCCACTGCTTTGCACCAGACTGGATAGGATTTGGTTTCAGTGACAAACCACAACCAGGATATGGTTTTAATTACACAGgtttcataatcaaaacatcttatatcttgaggaatttttactgcagaaacctcatactcataaatgtttttctttcatttctcatag

upper sequence: LOC_Os04g55180.2 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv09s0002g07500.t01 (Vitis vinifera), 5'ss of exon 4
ATGGCAGATGCTGGCTACCACTGCTTTGCTCCTGATTGGATAGGATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAGgtgtggccgtgtggcaaatgttgacaaaattaatgaatcttactaaactctcatttatattgtatcatgtgcag--------------------------------
||| |||||| ||| |  ||||| ||||| |||||||||||||| ||||| |||||||| | |||| |  | ||||||||||| |||||||||||| |     | |  || ||  | |    | | |||        |  | | |  ||| | || ||| | |  ||                                 
ATGTCAGATGTTGGGTTTCACTGTTTTGCACCTGATTGGATAGGCTTTGGTTTCAGTGAGAAGCCATATTCAGGATATGGATTTGACTACACAGgtctt-ttatttttcatatagtaatcttaattatgttatcagttgtattat--tttttgttatataacgctcaactttatgaagttttctcttcttactgtatcag

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|29678503|gb|CB674778.1|CB674778
EST:     ATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAG                         AAGAGGAGTTCCACAAGTCACTCGATGAGCTTCTTAGTACTTTAAATATCA
genomic: ATTTGGGTTCAGTGATATGCCACAGCCCGGATATGGATTCGACTACACAGgtgtggccgt ... tcatgtgcagAAGAGGAGTTCCACAAGTCACTCGATGAGCTTCTTAGTACTTTAAATATCA