Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATATAATTAGGGATTATTTGGAGGACATAAACGAGATACCAAAGTCACGTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtccatgtatcttcttttttcttactgagtactacctccgtcccaaaatacttgtcgttctaggttatttagcatgtactaaggtttgaagac...

Basic information

species Oryza sativa
transcript LOC_Os03g59040.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g59040.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G029396_T02 (Zea mays), 5'ss of exon 3
CAATATAATTAGGGATTATTTGGAGGACATAAACGAGATACCAAAGTCACGTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtccatgtatcttcttttttct--tactgagtactacctccgtcccaaaatacttgtcgtt---ctaggttatttagcatgtactaaggtttgaagac
 |||||||||||||||||||||||||||||||| |||||||||||||| || ||||||||||||||||| ||||||||||||||||   |||||||||||||| ||      |  | ||| ||||| ||  || ||||||    | || |   |    |  |||| |    |||  ||||    ||| |   ||  ||| |    
TAATATAATTAGGGATTATTTGGAGGACATAAATGAGATACCAAAGTCCCGCATGTTCTGGCCTCGAGAGATATGGAGTAAATATGCAGATAAACTCGAGgtacacaaaatgttcaacttttttttactgctattgagtaggttcaccatgt-atggcatatgtcctaagactaaattatcacacatctggcaatatttca----

upper sequence: LOC_Os03g59040.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G108225_T02 (Zea mays), 5'ss of exon 7
CAATATAATTAGGGATTATTTGGAGGACATAAACGAGATACCAAAGTCACGTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtccatgtatcttcttttttcttactgagtactacctccgtcccaaaatac-ttgtcgttctaggttatttagcatgtactaaggtttgaagac--
 || ||||||||||| ||||||||||||||||| |||||||||||||| || ||||||||||||||||| ||||||||||||||||   ||||||| |||||| ||     ||  | ||| |||  |  || ||||||     ||  |     ||||  || |    |||  ||||   ||||    ||   ||| | ||   
TAACATAATTAGGGACTATTTGGAGGACATAAATGAGATACCAAAGTCCCGCATGTTCTGGCCTCGAGAGATATGGAGTAAATATGCAGATAAACTTGAGgtacacaaaatattcaactt-tttactgctattgagta--gattcacttatggaatatgttctaagactaaattatcatgcatcctgtagtatttcatgatat

upper sequence: LOC_Os03g59040.1 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA11G11960.3 (Glycine max), 5'ss of exon 7
CAATATAATTAGGGATTATTTGGAGGACATAAACGAGATACCAAAGTCACGTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtata-ctgtcca-tgtatcttcttttttcttactgagtactacctccgtcccaaaatacttgtcgttctaggttatttagcatgtactaaggtttgaagac
 || || ||| | |||||| |||| ||||| || ||||| || |||||||| ||||| ||||| ||| | || |||||||||||||| || ||||| ||||| |  || |  | | ||     || | | | ||   ||  |           | || |    |  |  |   || |  |      ||  | |||  ||| |
AAACATTATTCGAGATTATCTGGAAGACATCAATGAGATCCCCAAGTCACGCATGTTTTGGCCACGACAGATTTGGAGTAAATATGTTAACAAACTTGAGgtttggctctatactatagtaatttatatttaacctcgttttgttataaagttagaaaatcaat--tcttgcattttccaatgaaaacacacgttccaaggc

upper sequence: LOC_Os03g59040.1 (Oryza sativa), 5'ss of exon 7
lower sequence: Vv03s0038g00450.t01 (Vitis vinifera), 5'ss of exon 7
CAATATAATTAGGGATTATTTGGAGGACATAAACGAGATACCAAAGTCACGTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtccatgtatcttcttttttcttactg-agtactacctccgtcccaaaatacttgtcgttctaggttatttagcatgtactaaggtttg--aagac-
 ||||||||  | |||||| ||||||| ||||| ||||| ||||||||||| ||||| ||||| || || || |||||||||||||| || ||||| ||||| |           || || | |||||  | |  |||  || ||  |    |   ||  |||| || |   |  || |  ||||| |   || |   |  |  
AAATATAATCCGAGATTATCTGGAGGATATAAATGAGATCCCAAAGTCACGCATGTTTTGGCCCCGTGAGATTTGGAGTAAATATGTTAACAAACTTGAGgtgtgtccctttcccatattttattttcagattatagttgtatctatg----agtttatctgtcattttgattctttcatgatgtaatgcagtatcctataatt

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|29677785|gb|CB674060.1|CB674060
EST:     GTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAGACTCGAG                         GATTTGAAATACGAGGACAATTCAGAAAAGGCAG
genomic: GTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtc ... ataaaatcagGATTTGAAATACGAGGAAAATTCAGAAAAGGCAG
EST: gi|33683121|gb|CF311360.1|CF311360
EST:     GTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAG                         GATTTGAAATACGAGGAAAATTCAGAAAAGGCAGTTCAGTGTTTGAATGAT
genomic: GTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtc ... ataaaatcagGATTTGAAATACGAGGAAAATTCAGAAAAGGCAGTTCAGTGTTTGAATGAT
EST: gi|29673560|gb|CB669835.1|CB669835
EST:     GTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAG                         GATTTGAAATACGAGGAAAATTCAGAAAAGGCAGTTCAGTGTTTGAATGAT
genomic: GTATGTTCTGGCCTCGAGAAATATGGAGTAAATATGTCAATAAACTCGAGgtatactgtc ... ataaaatcagGATTTGAAATACGAGGAAAATTCAGAAAAGGCAGTTCAGTGTTTGAATGAT