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'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacatcatgcagttgtctaattattagaatctatgtttctgaaagcttcaatatgtgaatttacctgaacagctttattttgccaatttttcagGTGACATCAAAGAAGGATCAGGAGCAGTATTGGGCCGACAAGCATAGGCCATACAGATACATTTCAGTCTCAGAATTTGCACAGAGATTTAAAAGGTTCC

Basic information

species Oryza sativa
transcript LOC_Os06g36090.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g36090.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G366146_T01 (Zea mays), 3'ss of exon 3
gtaacatcatgcagttgtctaattattagaatctatgtttctgaaagcttcaatatgtgaatttacctgaacagctttattttgccaatttttcagGTGACATCAAAGAAGGATCAGGAGCAGTATTGGGCCGACAAGCATAGGCCATACAGATACATTTCAGTCTCAGAATTTGCACAGAGATTTAAAAGGTTCC
||| |||    || |||| || | || | |   |||   | |||||||| || | | ||||||  | |||  | || |  ||||   | ||| ||||| ||||||| |||||||||||||||||| ||||| |||||||| ||||| |||||||||||||| ||  |||||||||||||| | ||| || ||||||
gtagcattcatcacttgtttagtaatcacatcatat-cctttgaaagct-cagtttatgaatt-gcatgacaacctattctttggacactttccagGTAACATCAAGGAAGGATCAGGAGCAGTACTGGGCTGACAAGCAGAGGCCTTACAGATACATTTCGGTGCCAGAATTTGCACAGCGGTTTCAACGGTTCC

upper sequence: LOC_Os06g36090.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G029506_T01 (Zea mays), 3'ss of exon 7
gtaacatcatgcagttgtctaattat-tagaatctatgt---ttctgaaagcttcaatatgtgaatt-tacctgaacagct--ttattttgccaatttttcagGTGACATCAAAGAAGGATCAGGAGCAGTATTGGGCCGACAAGCATAGGCCATACAGATACATTTCAGTCTCAGAATTTGCACAGAGATTTAAAAGGTTCC
||| |||   ||| ||||||| | |  ||| | | || |    |||||||||   | | | ||||||  | |   ||  |   || ||| |     ||| ||||| ||||||| |||||| ||||||||||| ||||| |||||||| | ||| ||||||||| |||| ||  |||||||||| ||| | |||||| ||||||
gtaccattcggcacttgtctagtaaagtagtaaccatatattctctgaaagcaa-agtttatgaattgcaacaagacgaccgattctttgggtgcctttccagGTAACATCAAGGAAGGACCAGGAGCAGTACTGGGCGGACAAGCAGATGCCTTACAGATACGTTTCGGTGCCAGAATTTGCGCAGCGGTTTAAACGGTTCC
















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|29643488|gb|CB648495.1|CB648495
EST:     CAGAGCGTAAGGGTACTGCAGACTTTCTTCAGGAG                         GTGACATCAAAGAAGGATCAGGAGCAGTATTGGGCCGACAAGCATAGGCCA
genomic: CAGAGCGTAAGGGTACTGCAGACTTTCTTCAGGAGgtaacatcat ... aatttttcagGTGACATCAAAGAAGGATCAGGAGCAGTATTGGGCCGACAAGCATAGGCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaagcttcaatatgtgaatttacctgaacagctttattttgccaatttttcagGTGACATCAAAGAAGGATCAGGAGCAGTATTGGGCCGACAAGCATAGGCCATACAGATACATTTCAGTCTCAGAATTTGCACAGAGATTTAAAAGGTTCC
                                               tttttc  CT-rich tract
          aatatgtgaattta  TA-rich tract