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'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtactgtagtattgggtactccataattcataatatctcaaggcacatgcataatccctaatgataccattactctcacag

Basic information

species Oryza sativa
transcript LOC_Os01g14810.3
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G044819_T02 (Zea mays), 5'ss of exon 3
GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtactgtagtattgggtactccataattcataatatctcaaggcacatgcataatccctaatgataccattactct--cacag
|| |||||||| ||||| ||||| ||||| |||| ||| || ||| |||||||||| || |||||||||||| ||||||| |||||||||||| ||  ||| |||     | ||| |    ||| |||||  |  | |||| |  || | | ||| |||||| ||| || |  |||||
GCCTGGGAAGGACGTGCATATGACTATGGGATGGACAACCTCAAGAGCATGGGTTTTCCAGTAGATGACCTTAAATTTGACCCTGACCTGgtagtgc-ctgcagt-----gcacttct---ttcctaatacattgaagcacttaaatcacctctagtgatacaattgctgtgtcacag

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G044819_T01 (Zea mays), 5'ss of exon 3
---GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtactgtagtattgggtactccataattcataatatctcaaggcacatgcataatccctaatgataccattactct--cacag
   || |||||||| ||||| ||||| ||||| |||| ||| || ||| |||||||||| || |||||||||||| ||||||| |||||||||||| ||  ||| |||     | ||| |    ||| |||||  |  | |||| |  || | | ||| |||||| ||| || |  |||||
CAGGCCTGGGAAGGACGTGCATATGACTATGGGATGGACAACCTCAAGAGCATGGGTTTTCCAGTAGATGACCTTAAATTTGACCCTGACCTGgtagtgc-ctgcagt-----gcacttct---ttcctaatacattgaagcacttaaatcacctctagtgatacaattgctgtgtcacag

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA17G04580.1 (Glycine max), 5'ss of exon 4
GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtactgtagta--ttg--ggtactccataattcataatatctcaaggcacatgca-taatcccta-atgataccattactctcacag
|||||||||||| | |||||||| ||  ||||||  || || |||   |||||||||||||| ||||  ||||  |||||||||||||||||| |    | | | |   ||  || | |    ||| |||| ||||||        || | | |||  |  ||      || | |    |||
GCTTGGGAAGGGAGGGCTTATGACTACTGTATGGAAAACCTTAAGAATATGGGTTTCCCTGTTGATGGACTTGCCTTTGATCCTGACCTGgtagttctttcttgcaagctgaaggcatttggcaatccatattatctctttttggttgaactgatctttgcattcctttataaattgttcag

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA13G17950.1 (Glycine max), 5'ss of exon 4
GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtactgtagta--ttg--ggtactccataattcataatatctcaaggcacatg-cataatcccta-atgataccattactctcacag
|||||||||||| | |||||||| ||  ||||||  || || |||   |||||||||||||| ||||  ||||  |||||||||||||||||| |   || | | |   ||  || | |    ||| |||| |||| |        || | | |||  |  ||      || | |    |||
GCTTGGGAAGGGAGGGCTTATGACTACTGTATGGAAAACCTTAAGAATATGGGTTTCCCTGTTGATGGACTTGCCTTTGATCCTGACCTGgtagttctctcttgcaagctgaaggcatttggcaatccatattatccctttttgggtgacctgatctttgcattcctttataaattgttcag

upper sequence: LOC_Os01g14810.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GLYMA15G21240.1 (Glycine max), 5'ss of exon 3
GCTTGGGAAGGGCGTGCTTATGATTATGGTATGGCCAATCTGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgta----ctgtagta---ttgggtactccataattcataatatc-tcaaggcacatgcataatccctaatgataccattactctcacag---------
||||||||||||||||||||||| ||  ||||||  || || |||   |||||||||||| | ||||  ||||  |||||||| |||||||||   |     || | | |   |   | | |   | ||||||   ||  | |       || ||  | |  | || ||   | | ||    |          
GCTTGGGAAGGGCGTGCTTATGACTACTGTATGGAAAACCTCAAGAATATGGGTTTCCCTATTGATGGACTTGCGTTTGATCCAGACCTGgtaacatgtcatctctggcaagctaaagcattttgtgattcattggattattatcatgtctg-atttttctaagtggtattttaattccattaaattgttcag

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|29627736|gb|CB632747.1|CB632747
EST:     TGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTG                         GTCATCAGGGGTCTAATTATGGATAAAGACAAAGGGAATTTGGTCAAAGCT
genomic: TGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtact ... actctcacagGTCATCAGGGGTCTAATTATGGATAAAGACAAAGGGAATTTGGTCAAAGCT
EST: gi|66923280|gb|CX110128.1|CX110128
EST:     TGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTG                         GTCATCAGGGGTCTAATTATGGATAAAGACAAAGGGAATTTGGTCAAAGCT
genomic: TGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtact ... actctcacagGTCATCAGGGGTCTAATTATGGATAAAGACAAAGGGAATTTGGTCAAAGCT
EST: gi|29673384|gb|CB669659.1|CB669659
EST:     TGAAGGGCATGGGTCTCCCTGTAGATGACCTTGAATTTGATCCTGACCTG                         GTCATCAGGGGTCTAATTATGGATAAAGACAAAGGGAATTTGGTCAAAGCT
genomic: TGAAGGGCATGGGTTTCCCTGTAGATGACCTTGAATTTGATCCTGACCTGgtactgtact ... actctcacagGTCATCAGGGGTCTAATTATGGATAAAGACAAAGGGAATTTGGTCAAAGCT